[med-svn] [ariba] 02/14: Imported Upstream version 2.0.0+ds
Sascha Steinbiss
satta at debian.org
Sun Jul 31 21:39:01 UTC 2016
This is an automated email from the git hooks/post-receive script.
satta pushed a commit to branch master
in repository ariba.
commit 7e09fda9c60f99dcafab12e0dcb338b223aaae34
Author: Sascha Steinbiss <satta at debian.org>
Date: Sun Jul 31 16:56:52 2016 +0000
Imported Upstream version 2.0.0+ds
---
.gitignore | 6 +
.travis.yml | 3 -
README.md | 28 +-
ariba/__init__.py | 3 +
ariba/aln_to_metadata.py | 31 +-
ariba/assembly.py | 58 +-
ariba/assembly_compare.py | 13 +-
ariba/assembly_variants.py | 27 +-
ariba/cdhit.py | 164 +-
ariba/cluster.py | 81 +-
ariba/clusters.py | 295 +-
ariba/ext/fml-asm_ariba.cpp | 194 +
ariba/ext/minimap_ariba.cpp | 351 ++
ariba/external_progs.py | 25 +-
ariba/flag.py | 2 +-
ariba/histogram.py | 13 +-
ariba/mash.py | 67 +
ariba/read_filter.py | 83 +
ariba/read_store.py | 33 +-
ariba/ref_genes_getter.py | 103 +-
ariba/ref_preparer.py | 161 +-
ariba/refdata_query.py | 89 +
ariba/reference_data.py | 395 +-
ariba/report.py | 78 +-
ariba/report_filter.py | 19 +-
ariba/sequence_metadata.py | 25 +-
ariba/summary.py | 45 +-
ariba/summary_cluster.py | 8 +-
ariba/tasks/__init__.py | 14 +
ariba/tasks/aln2meta.py | 16 +-
ariba/tasks/flag.py | 8 +-
ariba/tasks/getref.py | 13 +-
ariba/tasks/prepareref.py | 36 +-
ariba/tasks/refquery.py | 7 +
ariba/tasks/reportfilter.py | 17 +-
ariba/tasks/run.py | 47 +-
ariba/tasks/summary.py | 33 +-
ariba/tasks/test.py | 16 +-
ariba/tasks/version.py | 2 +-
ariba/test_run_data/metadata.tsv | 33 +-
ariba/test_run_data/non_coding.fa | 10 -
ariba/test_run_data/presence_absence.fa | 5 -
ariba/test_run_data/reads_1.fq | 2542 ++++++---
ariba/test_run_data/reads_2.fq | 2542 ++++++---
.../test_run_data/ref_fasta_to_make_reads_from.fa | 42 +-
ariba/test_run_data/ref_seqs.fa | 27 +
ariba/test_run_data/variants_only.fa | 6 -
ariba/tests/aln_to_metadata_test.py | 46 +-
ariba/tests/assembly_compare_test.py | 7 +-
ariba/tests/assembly_test.py | 83 +-
ariba/tests/assembly_variants_test.py | 87 +-
ariba/tests/bam_parse_test.py | 2 -
ariba/tests/cdhit_test.py | 128 +-
ariba/tests/cluster_test.py | 140 +-
ariba/tests/clusters_test.py | 167 +-
.../data/aln_to_metadata_make_cluster_file.out | 2 +-
.../data/aln_to_metadata_run_coding.out.cluster | 2 +-
.../tests/data/aln_to_metadata_run_coding.out.tsv | 14 +-
.../data/aln_to_metadata_run_noncoding.out.cluster | 2 +-
.../data/aln_to_metadata_run_noncoding.out.tsv | 14 +-
.../assembly_assemble_with_fermilite.expected.fa | 2 +
.../assembly_assemble_with_fermilite.expected.log | 11 +
.../assembly_assemble_with_fermilite.reads_1.fq | 232 +
.../assembly_assemble_with_fermilite.reads_2.fq | 232 +
...mbly_assemble_with_fermilite_fails.expected.log | 11 +
...sembly_assemble_with_fermilite_fails.reads_1.fq | 4 +
...sembly_assemble_with_fermilite_fails.reads_2.fq | 4 +
.../tests/data/assembly_run_fermilite.expected.fa | 2 +
.../tests/data/assembly_run_fermilite.expected.log | 10 +
ariba/tests/data/assembly_run_fermilite.reads.fq | 464 ++
.../data/assembly_run_fermilite_fail.reads.fq | 4 +
.../data/assembly_run_fermilite_fails.expected.log | 10 +
..._one_variant_for_one_contig_coding_metadata.tsv | 15 +-
..._variant_for_one_contig_non_coding.metadata.tsv | 14 +-
ariba/tests/data/cdhit_test_fake_run.out.fa | 40 -
.../data/cdhit_test_get_clusters_from_bak_file.in | 5 +
ariba/tests/data/cdhit_test_get_ids.fa | 6 -
.../data/cdhit_test_parse_cluster_info_file.infile | 6 -
.../data/cdhit_test_rename_clusters.expected.fa | 6 -
ariba/tests/data/cdhit_test_rename_clusters.in.fa | 6 -
ariba/tests/data/cdhit_test_run.out.fa | 20 -
.../cdhit_test_run_get_clusters_from_dict.out.fa | 4 -
...a => cluster_test_full_run_assembly_fail.in.fa} | 0
.../cluster_test_full_run_assembly_fail.in.tsv | 1 +
.../cluster_test_full_run_choose_ref_fail.in.fa | 4 +
.../cluster_test_full_run_choose_ref_fail.in.tsv | 2 +
...st_full_run_choose_ref_fail.presence_absence.fa | 2 -
.../reads_1.fq | 214 +-
.../reads_2.fq | 214 +-
...r_test_full_run_no_reads_after_filtering.in.fa} | 0
...r_test_full_run_no_reads_after_filtering.in.tsv | 1 +
.../reads_1.fq | 4 +
.../reads_2.fq | 4 +
.../references.fa} | 0
...cluster_test_full_run_ok_gene_start_mismatch.fa | 3 +
...st_full_run_ok_gene_start_mismatch.metadata.tsv | 1 +
...run_ok_gene_start_mismatch.ref_to_make_reads.fa | 7 +
.../reads_1.fq | 224 +
.../reads_2.fq | 224 +
.../references.fa | 3 +
...luster_test_full_run_ok_non_coding.metadata.tsv | 11 +-
..._test_full_run_ok_presence_absence.metadata.tsv | 9 +-
...nts_only.not_present.always_report.metadata.tsv | 5 +-
...l_run_ok_variants_only.not_present.metadata.tsv | 5 +-
..._full_run_ok_variants_only.present.metadata.tsv | 7 +-
ariba/tests/data/cluster_test_init_refdata.tsv | 1 +
...luster_test_number_of_reads_for_assembly.ref.fa | 3 -
.../data/clusters_test_bam_to_clusters_reads.bam | Bin 453 -> 0 bytes
.../data/clusters_test_bam_to_clusters_reads.db.fa | 54 -
...usters_test_bam_to_clusters_reads.read_store.gz | Bin 213 -> 0 bytes
.../clusters_test_bam_to_clusters_reads.reads_1.fq | 8 -
.../clusters_test_bam_to_clusters_reads.reads_2.fq | 8 -
...ers_test_bam_to_clusters_reads_no_reads_map.bam | Bin 364 -> 0 bytes
...rs_test_bam_to_clusters_reads_no_reads_map_1.fq | 8 -
...rs_test_bam_to_clusters_reads_no_reads_map_2.fq | 8 -
ariba/tests/data/clusters_test_dummy_db.tsv | 1 +
..._test_load_minimap_files.cluster2representative | 2 +
.../clusters_test_load_minimap_files.clusterCounts | 2 +
...lusters_test_load_minimap_files.insertHistogram | 7 +
.../clusters_test_load_minimap_files.properPairs | 1 +
.../clusters_test_load_minimap_insert_histogram.in | 7 +
...test_load_minimap_out_cluster2representative.in | 2 +
...lusters_test_load_minimap_out_cluster_counts.in | 2 +
.../clusters_test_load_minimap_proper_pairs.in | 1 +
.../{info.txt => 00.info.txt} | 0
.../01.filter.check_metadata.tsv | 3 +
.../02.cdhit.all.fa | 6 +
.../02.cdhit.clusters.pickle | Bin 0 -> 135 bytes
.../cdhit.clusters.pickle | Bin 34 -> 0 bytes
.../refcheck.01.check_variants.non_coding.fa | 2 -
.../refcheck.01.check_variants.presence_absence.fa | 2 -
.../refcheck.01.check_variants.tsv | 2 -
.../refcheck.01.check_variants.variants_only.fa | 2 -
...test_minimap_reads_to_all_ref_seqs.clusters.tsv | 3 +
...eads_to_all_ref_seqs.out.cluster2representative | 2 +
...minimap_reads_to_all_ref_seqs.out.clusterCounts | 2 +
...nimap_reads_to_all_ref_seqs.out.insertHistogram | 31 +
...t_minimap_reads_to_all_ref_seqs.out.properPairs | 1 +
...s_test_minimap_reads_to_all_ref_seqs.reads_1.fq | 5884 ++++++++++++++++++++
...s_test_minimap_reads_to_all_ref_seqs.reads_2.fq | 5884 ++++++++++++++++++++
...sters_test_minimap_reads_to_all_ref_seqs.ref.fa | 545 ++
ariba/tests/data/clusters_test_write_report.tsv | 2 +-
ariba/tests/data/mash_test_run.in.qry.fa | 10 +
ariba/tests/data/mash_test_run.in.ref.fa | 40 +
.../data/read_filter_cdhit_clstr_to_reads.in.clstr | 18 +
.../data/read_filter_test_run.expected.reads_1.fq | 24 +
.../data/read_filter_test_run.expected.reads_2.fq | 24 +
.../tests/data/read_filter_test_run.in.read_store | 38 +
.../tests/data/read_filter_test_run.in.reads_1.fq | 72 +
.../tests/data/read_filter_test_run.in.reads_2.fq | 72 +
ariba/tests/data/read_filter_test_run.in.ref.fa | 54 +
...ead_filter_test_run_cdhit_est_2d.expected.clstr | 42 +
.../read_filter_test_run_cdhit_est_2d.reads.in.fa | 108 +
.../read_filter_test_run_cdhit_est_2d.ref.in.fa | 54 +
.../read_store_test_get_reads.expected.reads.fa | 12 +
...=> read_store_test_get_reads.expected.reads.fq} | 12 +
.../read_store_test_get_reads.expected.reads_1.fa | 6 +
... read_store_test_get_reads.expected.reads_1.fq} | 0
.../read_store_test_get_reads.expected.reads_2.fa | 6 +
... read_store_test_get_reads.expected.reads_2.fq} | 0
...tore_test_get_reads.expected.reads_subset.1.fq} | 4 -
...tore_test_get_reads.expected.reads_subset.2.fq} | 4 -
ariba/tests/data/ref_preparer_test_run.in.1.fa | 8 +
ariba/tests/data/ref_preparer_test_run.in.1.tsv | 4 +
ariba/tests/data/ref_preparer_test_run.in.2.fa | 8 +
ariba/tests/data/ref_preparer_test_run.in.2.tsv | 5 +
ariba/tests/data/ref_preparer_test_run.in.3.fa | 2 +
.../data/ref_preparer_test_run.out/00.info.txt | 6 +
.../ref_preparer_test_run.out/00.version_info.txt | 5 +
.../01.filter.check_genes.log | 5 +
.../01.filter.check_metadata.log | 1 +
.../01.filter.check_metadata.tsv | 8 +
.../data/ref_preparer_test_run.out/02.cdhit.all.fa | 16 +
.../02.cdhit.clusters.pickle | Bin 0 -> 276 bytes
.../02.cdhit.clusters.tsv | 5 +
.../ref_preparer_test_run.out/02.cdhit.gene.fa | 6 +
.../02.cdhit.gene.varonly.fa | 2 +
.../02.cdhit.noncoding.fa | 8 +
.../02.cdhit.noncoding.varonly.fa} | 0
.../data/ref_preparer_test_write_info_file.out | 5 -
ariba/tests/data/refdata_query_prepareref.in.fa | 82 +
ariba/tests/data/refdata_query_prepareref.in.tsv | 13 +
.../data/refdata_query_prepareref/00.info.txt | 3 +
.../data/refdata_query_prepareref/00.rename_info | 1 +
.../refdata_query_prepareref/00.version_info.txt | 32 +
.../01.filter.check_genes.log | 6 +
.../01.filter.check_metadata.log} | 0
.../01.filter.check_metadata.tsv | 13 +
.../data/refdata_query_prepareref/02.cdhit.all.fa | 82 +
.../02.cdhit.clusters.pickle | Bin 0 -> 314 bytes
.../refdata_query_prepareref/02.cdhit.clusters.tsv | 6 +
.../data/refdata_query_prepareref/02.cdhit.gene.fa | 46 +
.../02.cdhit.gene.varonly.fa | 18 +
.../refdata_query_prepareref/02.cdhit.noncoding.fa | 14 +
.../02.cdhit.noncoding.varonly.fa | 4 +
...reference_data_filter_bad_data.expected.all.fa} | 4 +
...ata_filter_bad_data.expected.check_metadata.log | 5 +
...ata_filter_bad_data.expected.check_metadata.tsv | 10 +
.../reference_data_filter_bad_data.expected.log | 5 +
...ence_data_filter_bad_data.expected.metadata.tsv | 10 +
.../data/reference_data_filter_bad_data.in.fa | 12 +
...ence_data_filter_bad_data_metadata.expected.tsv | 9 -
.../reference_data_filter_bad_data_metadata.in.tsv | 37 +-
...nce_data_filter_bad_data_non_coding.expected.fa | 2 -
..._data_filter_bad_data_variants_only.expected.fa | 2 -
ariba/tests/data/reference_data_get_filename | 1 -
ariba/tests/data/reference_data_init.tsv | 4 -
.../data/reference_data_init_fails.empty.fa} | 0
.../data/reference_data_init_fails.empty.tsv} | 0
ariba/tests/data/reference_data_init_fails.in.fa | 4 +
...nce_absence.fa => reference_data_init_ok.in.fa} | 2 +-
ariba/tests/data/reference_data_init_ok.in.tsv | 2 +
...fa => reference_data_load_all_fasta_files.in.1} | 2 -
.../data/reference_data_load_all_fasta_files.in.2 | 2 +
.../reference_data_load_all_metadata_tsvs.1.tsv | 1 +
.../reference_data_load_all_metadata_tsvs.2.tsv | 2 +
...ad_input_files_and_check_seq_names.bad.in.csv.1 | 1 +
...ad_input_files_and_check_seq_names.bad.in.csv.2 | 2 +
...oad_input_files_and_check_seq_names.bad.in.fa.1 | 4 +
...oad_input_files_and_check_seq_names.bad.in.fa.2 | 2 +
...d_input_files_and_check_seq_names.good.in.csv.1 | 1 +
...d_input_files_and_check_seq_names.good.in.csv.2 | 2 +
...d_input_files_and_check_seq_names.good.in.fa.1} | 2 -
...ad_input_files_and_check_seq_names.good.in.fa.2 | 2 +
.../data/reference_data_load_metadata_tsv.tsv | 6 +-
.../reference_data_make_catted_fasta.expected.fa | 6 -
.../reference_data_make_catted_fasta.noncoding.fa | 2 -
...ence_data_make_catted_fasta.presence_absence.fa | 2 -
...ference_data_make_catted_fasta.variants_only.fa | 2 -
.../data/reference_data_remove_bad_genes.in.fa | 2 +
.../data/reference_data_remove_bad_genes.in.tsv | 6 +
.../tests/data/reference_data_rename_sequences.fa | 22 +
.../reference_data_rename_sequences.noncoding.fa | 4 -
...rence_data_rename_sequences.presence_absence.fa | 10 -
...eference_data_rename_sequences.variants_only.fa | 8 -
.../reference_data_rename_sequences_metadata.tsv | 22 +-
ariba/tests/data/reference_data_sequence.in.fa | 4 +
ariba/tests/data/reference_data_sequence.in.tsv | 2 +
.../reference_data_sequence.presence_absence.fa | 2 -
...erence_data_sequence_length.presence_absence.fa | 2 -
.../tests/data/reference_data_sequence_type.in.fa | 8 +
.../tests/data/reference_data_sequence_type.in.tsv | 4 +
.../data/reference_data_sequence_type.noncoding.fa | 2 -
...eference_data_sequence_type.presence_absence.fa | 2 -
.../reference_data_sequence_type.variants_only.fa | 2 -
...nce_data_test_all_non_wild_type_variants.ref.fa | 6 +
...est_all_non_wild_type_variants.ref.noncoding.fa | 2 -
...test_all_non_wild_type_variants.ref.pres_abs.fa | 2 -
...test_all_non_wild_type_variants.ref.var_only.fa | 2 -
...erence_data_test_all_non_wild_type_variants.tsv | 20 +-
...rence_data_test_cluster_with_cdhit.clusters.tsv | 3 -
...a_test_cluster_with_cdhit.expected.clusters.tsv | 3 +
..._cluster_with_cdhit.expected_representatives.fa | 10 -
...> reference_data_test_cluster_with_cdhit.in.fa} | 5 +
.../reference_data_test_cluster_with_cdhit.in.tsv | 5 +
...ence_data_test_cluster_with_cdhit.non_coding.fa | 5 -
...ata_test_cluster_with_cdhit.presence_absence.fa | 10 -
...st_cluster_with_cdhit_clusters_in_file.clusters | 4 -
...luster_with_cdhit_clusters_in_file.clusters.tsv | 4 -
...th_cdhit_clusters_in_file.expected.clusters.tsv | 4 +
...ter_with_cdhit_clusters_in_file.in.clusters.tsv | 4 +
...test_cluster_with_cdhit_clusters_in_file.in.fa} | 12 +-
...cluster_with_cdhit_clusters_in_file.in.meta.tsv | 6 +
...uster_with_cdhit_clusters_in_file.non_coding.fa | 10 -
..._test_cluster_with_cdhit_nocluster.clusters.tsv | 6 -
...ster_with_cdhit_nocluster.expected.clusters.tsv | 6 +
...e_data_test_cluster_with_cdhit_nocluster.in.fa} | 20 +-
...e_data_test_cluster_with_cdhit_nocluster.in.tsv | 6 +
...test_cluster_with_cdhit_nocluster.non_coding.fa | 10 -
...luster_with_cdhit_nocluster.presence_absence.fa | 10 -
...ata_test_write_cluster_allocation_file.expected | 8 +-
.../reference_data_test_write_seqs_to_fasta.in.tsv | 5 +
.../reference_data_write_metadata_tsv.expected.tsv | 4 +-
.../data/reference_data_write_metadata_tsv.tsv | 4 +-
...nce_data_write_metadata_tsv_presence_absence.fa | 4 -
.../reference_data_write_sequences_to_files.all.fa | 10 +
...reference_data_write_sequences_to_files.gene.fa | 2 +
...e_data_write_sequences_to_files.gene.varonly.fa | 2 +
...ence_data_write_sequences_to_files.noncoding.fa | 4 +
...a_write_sequences_to_files.noncoding.varonly.fa | 2 +
ariba/tests/data/report_filter_test_init_good.tsv | 10 +-
.../data/report_filter_test_load_report_good.tsv | 10 +-
.../tests/data/report_filter_test_run.expected.tsv | 12 +-
ariba/tests/data/report_filter_test_run.in.tsv | 18 +-
.../tests/data/report_filter_test_write_report.tsv | 8 +-
.../summary_sample_test_column_names_tuples.tsv | 16 +-
.../summary_sample_test_column_summary_data.tsv | 16 +-
.../data/summary_sample_test_load_file.in.tsv | 14 +-
.../tests/data/summary_sample_test_var_groups.tsv | 14 +-
.../data/summary_test_gather_output_rows.in.1.tsv | 6 +-
.../data/summary_test_gather_output_rows.in.2.tsv | 10 +-
.../data/summary_test_get_all_cluster_names.1.tsv | 6 +-
.../data/summary_test_get_all_cluster_names.2.tsv | 10 +-
.../data/summary_test_get_all_var_groups.1.tsv | 6 +-
.../data/summary_test_get_all_var_groups.2.tsv | 10 +-
.../tests/data/summary_test_load_input_files.1.tsv | 6 +-
.../tests/data/summary_test_load_input_files.2.tsv | 10 +-
.../summary_test_newick_from_dist_matrix.distances | 8 +-
.../data/summary_test_newick_from_dist_matrix.tre | 1 -
.../summary_test_write_distance_matrix.distances | 8 +-
ariba/tests/data/vfdb_parser_test_run.out.tsv | 5 +-
ariba/tests/external_progs_test.py | 3 +-
ariba/tests/flag_test.py | 2 +-
ariba/tests/histogram_test.py | 4 +-
ariba/tests/link_test.py | 7 +-
ariba/tests/mapping_test.py | 1 -
ariba/tests/mash_test.py | 21 +
ariba/tests/read_filter_test.py | 54 +
ariba/tests/read_store_test.py | 70 +-
ariba/tests/ref_preparer_test.py | 162 +-
ariba/tests/reference_data_test.py | 684 +--
ariba/tests/report_filter_test.py | 65 +-
ariba/tests/samtools_variants_test.py | 2 -
ariba/tests/scaffold_graph_test.py | 9 +-
ariba/tests/sequence_metadata_test.py | 46 +-
ariba/tests/sequence_variant_test.py | 2 +-
ariba/tests/summary_cluster_test.py | 211 +-
ariba/tests/summary_sample_test.py | 6 +-
ariba/tests/summary_test.py | 54 +-
ariba/tests/test_refdata_query.py | 90 +
ariba/tests/vfdb_parser_test.py | 10 +-
ariba/versions.py | 6 +-
ariba/vfdb_parser.py | 9 +-
install_dependencies.sh | 35 +-
scripts/ariba | 226 +-
setup.py | 52 +-
326 files changed, 22525 insertions(+), 4045 deletions(-)
diff --git a/.gitignore b/.gitignore
index 72e6dfb..98a24c8 100644
--- a/.gitignore
+++ b/.gitignore
@@ -1,9 +1,15 @@
+.*.swp
+
+minimap_ariba
+
# Byte-compiled / optimized / DLL files
__pycache__/
*.py[cod]
# C extensions
*.so
+*.o
+*.a
# Distribution / packaging
.Python
diff --git a/.travis.yml b/.travis.yml
index d2e1f1a..fb4b157 100644
--- a/.travis.yml
+++ b/.travis.yml
@@ -7,9 +7,6 @@ addons:
- liblapack-dev
- libgfortran3
- libncurses5-dev
- - r-base
- - r-base-dev
- - r-base-core
cache:
directories:
- "build"
diff --git a/README.md b/README.md
index cfbfb14..8ee083d 100644
--- a/README.md
+++ b/README.md
@@ -21,21 +21,12 @@ Installation
ARIBA has the following dependencies, which need to be installed:
* [Python3][python] version >= 3.4
- * [R][r] version >= 2.14.0
- * The R package [ape][ape] version >= 3.1
* [Bowtie2][bowtie2] version >= 2.1.0
* [CD-HIT][cdhit] version >= 4.6
- * [Samtools and BCFtools][samtools] version >= 1.2
+ * [MASH][mash] version >= 1.0.2
* [MUMmer][mummer] version >= 3.23
- * [SPAdes][spades] version >= 3.5.0
- * [Python2][python] version >= 2.7 (SPAdes needs python2)
-
+ * [Samtools and BCFtools][samtools] version >= 1.2
-ARIBA has the following optional dependencies. If they are installed,
-they will be used. Otherwise scaffolding and gap filling will be
-skipped.
- * [SSPACE-basic scaffolder][sspace]
- * [GapFiller][gapfiller]
Once the dependencies are installed, install ARIBA using pip:
@@ -64,12 +55,10 @@ to the following dependencies.
|----------------|------------------------|---------------------------|
| BCFtools | `bcftools` | `$ARIBA_BCFTOOLS` |
| Bowtie2 | `bowtie2` | `$ARIBA_BOWTIE2` |
-| CD-HIT | `cd-hit-est` | `$ARIBA_CDHIT` |
-| GapFiller | `GapFiller.pl` | `$ARIBA_GAPFILLER` |
-| R | `Rscript` | `$ARIBA_R` |
+| CD-HIT (est) | `cd-hit-est` | `$ARIBA_CDHIT` |
+| CD-HIT (est-2d)| `cd-hit-est-2d` | `$ARIBA_CDHIT2D` |
+| MASH | `mash` | `$ARIBA_MASH` |
| Samtools | `samtools` | `$ARIBA_SAMTOOLS` |
-| SPAdes | `spades.py` | `$ARIBA_SPADES` |
-| SSPACE | `SSPACE_Basic_v2.0.pl` | `$ARIBA_SSPACE` |
For example, you could specify an exact version of a Samtools executable
@@ -77,6 +66,7 @@ that you compiled and downloaded in your home directory (assuming BASH):
export ARIBA_SAMTOOLS=$HOME/samtools-1.2/samtools
+
### Temporary files
ARIBA can temporarily make a large number of files whilst running, which
@@ -131,13 +121,9 @@ Build status: [:
self.padded_seqs = AlnToMetadata._load_aln_file(aln_file)
self.refs_are_coding = refs_are_coding
+ self.refs_are_variant_only = refs_are_variant_only
self.variants = AlnToMetadata._load_vars_file(vars_file, self.refs_are_coding)
self.genetic_code = genetic_code
self.cluster_rep_name = cluster_rep_name
@@ -188,9 +188,14 @@ class AlnToMetadata:
@classmethod
- def _variants_to_tsv_lines(cls, variants, unpadded_sequences, padded_sequences, insertions, seqs_are_coding):
+ def _variants_to_tsv_lines(cls, variants, unpadded_sequences, padded_sequences, insertions, seqs_are_coding, seqs_are_var_only):
if seqs_are_coding:
unpadded_aa_sequences = {x: unpadded_sequences[x].translate() for x in unpadded_sequences}
+ is_gene = '1'
+ else:
+ is_gene = '0'
+
+ is_var_only = '1' if seqs_are_var_only else '0'
lines = []
for refname in sorted(variants):
@@ -201,7 +206,7 @@ class AlnToMetadata:
ref_unpadded_nt_position = variant.position
padded_nt_position = AlnToMetadata._unpadded_to_padded_nt_position(ref_unpadded_nt_position, insertions[refname])
- lines.append('\t'.join([refname, variant.variant_type, str(variant), variant.identifier, description]))
+ lines.append('\t'.join([refname, is_gene, is_var_only, str(variant), variant.identifier, description]))
for seqname, seq in sorted(padded_sequences.items()):
if seqname == refname:
@@ -217,33 +222,29 @@ class AlnToMetadata:
if seqs_are_coding:
assert unpadded_nt_position % 3 == 0
unpadded_aa_position = unpadded_nt_position // 3
- pos_string = str(unpadded_aa_position)
+
if unpadded_aa_sequences[seqname][unpadded_aa_position] in {variant.wild_value, variant.variant_value}:
variant_string = variant.wild_value
else:
variant_string = unpadded_aa_sequences[seqname][unpadded_aa_position]
variant_string += str(unpadded_aa_position + 1) + variant.variant_value
else:
- pos_string = str(unpadded_nt_position)
if unpadded_sequences[seqname][unpadded_nt_position] in {variant.wild_value, variant.variant_value}:
variant_string = variant.wild_value
else:
variant_string = unpadded_sequences[seqname][unpadded_nt_position]
variant_string += str(unpadded_nt_position + 1) + variant.variant_value
- lines.append('\t'.join([seqname, variant.variant_type, variant_string, variant.identifier, description]))
+ lines.append('\t'.join([seqname, is_gene, is_var_only, variant_string, variant.identifier, description]))
return lines
@classmethod
- def _make_cluster_file(cls, cluster_name, sequences, filename):
- if cluster_name not in sequences:
- raise Error('Sequence name "' + cluster_name + '" to be used as cluster representative not found. Cannot continue')
- names = [x for x in sequences.keys() if x != cluster_name]
- names.sort()
+ def _make_cluster_file(cls, sequences, filename):
+ names = sorted(sequences.keys())
with open(filename, 'w') as f:
- print(cluster_name, *names, sep='\t', file=f)
+ print(*names, sep='\t', file=f)
def run(self, outprefix):
@@ -257,7 +258,7 @@ class AlnToMetadata:
AlnToMetadata._variant_ids_are_unique(self.variants)
AlnToMetadata._check_variants_match_sequences(unpadded_seqs, self.variants, self.refs_are_coding, genetic_code=self.genetic_code)
- tsv_lines = AlnToMetadata._variants_to_tsv_lines(self.variants, unpadded_seqs, self.padded_seqs, insertions, self.refs_are_coding)
+ tsv_lines = AlnToMetadata._variants_to_tsv_lines(self.variants, unpadded_seqs, self.padded_seqs, insertions, self.refs_are_coding, self.refs_are_variant_only)
with open(outprefix + '.tsv', 'w') as f:
print(*tsv_lines, sep='\n', file=f)
@@ -265,5 +266,5 @@ class AlnToMetadata:
for seqname in sorted(unpadded_seqs):
print(unpadded_seqs[seqname], sep='\n', file=f)
- AlnToMetadata._make_cluster_file(self.cluster_rep_name, unpadded_seqs, outprefix + '.cluster')
+ AlnToMetadata._make_cluster_file(unpadded_seqs, outprefix + '.cluster')
pyfastaq.sequences.genetic_code = original_code
diff --git a/ariba/assembly.py b/ariba/assembly.py
index 4344ac2..456f0ef 100644
--- a/ariba/assembly.py
+++ b/ariba/assembly.py
@@ -3,7 +3,8 @@ import sys
import shutil
import pyfastaq
import pymummer
-from ariba import common, mapping, bam_parse, external_progs
+import fermilite_ariba
+from ariba import common, faidx, mapping, bam_parse, external_progs, mash
class Error (Exception): pass
@@ -12,14 +13,14 @@ class Assembly:
reads1,
reads2,
ref_fasta,
+ ref_fastas,
working_dir,
final_assembly_fa,
final_assembly_bam,
log_fh,
scaff_name_prefix='scaffold',
kmer=0,
- assembler='spades',
- bowtie2_preset='very-sensitive-local',
+ assembler='fermilite',
max_insert=1000,
min_scaff_depth=10,
min_scaff_length=50,
@@ -36,15 +37,16 @@ class Assembly:
self.reads1 = os.path.abspath(reads1)
self.reads2 = os.path.abspath(reads2)
self.ref_fasta = os.path.abspath(ref_fasta)
+ self.ref_fastas = os.path.abspath(ref_fastas)
self.working_dir = os.path.abspath(working_dir)
self.final_assembly_fa = os.path.abspath(final_assembly_fa)
self.final_assembly_bam = os.path.abspath(final_assembly_bam)
self.log_fh = log_fh
self.scaff_name_prefix = scaff_name_prefix
+ self.ref_seq_name = None
self.assembly_kmer = self._get_assembly_kmer(kmer, reads1, reads2)
self.assembler = assembler
- self.bowtie2_preset = bowtie2_preset
self.max_insert = max_insert
self.min_scaff_depth = min_scaff_depth
self.min_scaff_length = min_scaff_length
@@ -74,6 +76,7 @@ class Assembly:
self.gapfill_dir = os.path.join(self.working_dir, 'Gapfill')
self.gapfilled_scaffolds = os.path.join(self.working_dir, 'scaffolds.gapfilled.fa')
self.gapfilled_length_filtered = os.path.join(self.working_dir, 'scaffolds.gapfilled.length_filtered.fa')
+ self.mash_dist_file = os.path.join(self.working_dir, 'mash_dist_to_ref_seqs')
@staticmethod
@@ -107,6 +110,34 @@ class Assembly:
return True
+ @staticmethod
+ def _run_fermilite(reads_in, fasta_out, log_out):
+ return fermilite_ariba.fermilite_ariba(reads_in, fasta_out, log_out)
+
+
+ def _assemble_with_fermilite(self):
+ cwd = os.getcwd()
+ try:
+ os.chdir(self.working_dir)
+ except:
+ raise Error('Error chdir ' + self.working_dir)
+
+ interleaved_reads = 'reads.fq'
+ pyfastaq.tasks.interleave(self.reads1, self.reads2, interleaved_reads)
+ fermilite_log = self.assembly_contigs + '.log'
+ got_from_fermilite = self._run_fermilite(interleaved_reads, self.assembly_contigs, fermilite_log)
+ os.unlink(interleaved_reads)
+ if os.path.exists(fermilite_log):
+ with open(fermilite_log) as f:
+ for line in f:
+ print(line, end='', file=self.log_fh)
+
+ os.unlink(fermilite_log)
+
+ self.assembled_ok = (got_from_fermilite == 0)
+ os.chdir(cwd)
+
+
def _assemble_with_spades(self, unittest=False):
cmd = ' '.join([
self.extern_progs.exe('spades'),
@@ -176,7 +207,8 @@ class Assembly:
cwd = os.getcwd()
- if self.extern_progs.exe('sspace') is None:
+ #if self.extern_progs.exe('sspace') is None:
+ if True: # no longer use sspace, but leave the option here just in case
os.chdir(self.working_dir)
os.symlink(self.assembly_contigs, os.path.basename(self.scaffolder_scaffolds))
os.chdir(cwd)
@@ -238,7 +270,8 @@ class Assembly:
cwd = os.getcwd()
- if self.extern_progs.exe('gapfiller') is None or not self._has_gaps_to_fill(self.scaffolder_scaffolds):
+ #if self.extern_progs.exe('gapfiller') is None or not self._has_gaps_to_fill(self.scaffolder_scaffolds):
+ if True: # no longer use gapfiller, but leave the option in, just in case
self._rename_scaffolds(self.scaffolder_scaffolds, self.gapfilled_scaffolds, self.scaff_name_prefix)
return
@@ -320,7 +353,7 @@ class Assembly:
def run(self):
- self._assemble_with_spades()
+ self._assemble_with_fermilite()
self.sequences = {}
# double-check we got some contigs
@@ -344,6 +377,16 @@ class Assembly:
self.log_fh = None
return
+ masher = mash.Masher(self.ref_fastas, self.gapfilled_length_filtered, self.log_fh, self.extern_progs)
+ self.ref_seq_name = masher.run(self.mash_dist_file)
+ if self.ref_seq_name is None:
+ print('Could not determine closest reference sequence', file=self.log_fh)
+ self.log_fh = None
+ return
+
+ faidx.write_fa_subset({self.ref_seq_name}, self.ref_fastas, self.ref_fasta, samtools_exe=self.extern_progs.exe('samtools'), verbose=True, verbose_filehandle=self.log_fh)
+ print('Closest reference sequence according to mash: ', self.ref_seq_name, file=self.log_fh)
+
contigs_both_strands = self._fix_contig_orientation(self.gapfilled_length_filtered, self.ref_fasta, self.final_assembly_fa, min_id=self.nucmer_min_id, min_length=self.nucmer_min_len, breaklen=self.nucmer_breaklen)
self.has_contigs_on_both_strands = len(contigs_both_strands) > 0
pyfastaq.tasks.file_to_dict(self.final_assembly_fa, self.sequences)
@@ -357,7 +400,6 @@ class Assembly:
sort=True,
samtools=self.extern_progs.exe('samtools'),
bowtie2=self.extern_progs.exe('bowtie2'),
- bowtie2_preset=self.bowtie2_preset,
verbose=True,
verbose_filehandle=self.log_fh
)
diff --git a/ariba/assembly_compare.py b/ariba/assembly_compare.py
index e2f7599..ceefa1d 100644
--- a/ariba/assembly_compare.py
+++ b/ariba/assembly_compare.py
@@ -33,6 +33,7 @@ class AssemblyCompare:
self.assembled_threshold = assembled_threshold
self.unique_threshold = unique_threshold
self.max_gene_nt_extend = max_gene_nt_extend
+ self.scaff_name_matching_ref = None
self.gene_matching_ref = None
self.gene_matching_ref_type = None
self.gene_start_bases_added = None
@@ -309,7 +310,7 @@ class AssemblyCompare:
if longest_match is None:
return None, 'NO_MATCH', None, None
else:
- return AssemblyCompare._gene_from_nucmer_match(longest_match, contigs[longest_match.qry_name], max_end_nt_extend)
+ return (longest_match.qry_name,) + AssemblyCompare._gene_from_nucmer_match(longest_match, contigs[longest_match.qry_name], max_end_nt_extend)
@staticmethod
@@ -334,8 +335,8 @@ class AssemblyCompare:
if self._ref_has_region_assembled_twice(self.nucmer_hits, self.ref_sequence, self.unique_threshold):
flag.add('region_assembled_twice')
- ref_seq_type = self.refdata.sequence_type(self.ref_sequence.id)
- if ref_seq_type != 'non_coding' and self.gene_matching_ref_type == 'GENE_FOUND':
+ ref_seq_type, is_variant_only = self.refdata.sequence_type(self.ref_sequence.id)
+ if ref_seq_type == 'p' and self.gene_matching_ref_type == 'GENE_FOUND':
flag.add('complete_gene')
if len(self.nucmer_hits) == 1:
@@ -362,10 +363,10 @@ class AssemblyCompare:
self.nucmer_hits = self._parse_nucmer_coords_file(self.nucmer_coords_file, self.ref_sequence.id)
self.percent_identities = self._nucmer_hits_to_percent_identity(self.nucmer_hits)
self.assembled_reference_sequences = self._get_assembled_reference_sequences(self.nucmer_hits, self.ref_sequence, self.assembly_sequences)
- ref_seq_type = self.refdata.sequence_type(self.ref_sequence.id)
+ ref_seq_type, is_variant_only = self.refdata.sequence_type(self.ref_sequence.id)
if self._ref_covered_by_at_least_one_full_length_contig(self.nucmer_hits, self.assembled_threshold, self.max_gene_nt_extend):
self.assembled_into_one_contig = True
- if ref_seq_type != 'non_coding':
- self.gene_matching_ref, self.gene_matching_ref_type, self.gene_start_bases_added, self.gene_end_bases_added = self._get_gene_matching_ref(self.nucmer_hits, self.assembly_sequences, self.max_gene_nt_extend)
+ if ref_seq_type == 'p':
+ self.scaff_name_matching_ref, self.gene_matching_ref, self.gene_matching_ref_type, self.gene_start_bases_added, self.gene_end_bases_added = self._get_gene_matching_ref(self.nucmer_hits, self.assembly_sequences, self.max_gene_nt_extend)
else:
self.assembled_into_one_contig = False
diff --git a/ariba/assembly_variants.py b/ariba/assembly_variants.py
index 137cb23..733334c 100644
--- a/ariba/assembly_variants.py
+++ b/ariba/assembly_variants.py
@@ -1,4 +1,3 @@
-import sys
import operator
import pyfastaq
import pymummer
@@ -243,9 +242,9 @@ class AssemblyVariants:
variant_pos_matches_contig = False
pos = known_ref_variant.variant.position
- if known_ref_variant.variant_type == 'n':
+ if known_ref_variant.seq_type == 'n':
ref_interval = intervals.Interval(pos, pos)
- elif known_ref_variant.variant_type == 'p':
+ elif known_ref_variant.seq_type == 'p':
ref_interval = intervals.Interval(3 * pos, 3 * pos + 2)
else:
raise Error('Unexpected variant type "' + known_ref_variant.variant_type + '" in _get_remaining_known_ref_variants. Cannot continue')
@@ -256,7 +255,7 @@ class AssemblyVariants:
break
if variant_pos_matches_contig:
- variants.append((None, known_ref_variant.variant_type, None, None, None, {known_ref_variant}, set()))
+ variants.append((None, known_ref_variant.seq_type, None, None, None, {known_ref_variant}, set()))
return variants
@@ -278,8 +277,7 @@ class AssemblyVariants:
'''
mummer_variants = self._get_mummer_variants(self.nucmer_snp_file)
variants = {}
- ref_sequence_type = self.refdata.sequence_type(ref_sequence_name)
- assert ref_sequence_type is not None
+ seq_type, is_variant_only = self.refdata.sequence_type(ref_sequence_name)
ref_sequence = self.refdata.sequence(ref_sequence_name)
if ref_sequence_name in self.refdata.metadata:
@@ -295,11 +293,11 @@ class AssemblyVariants:
if contig in mummer_variants:
for mummer_variant_list in mummer_variants[contig]:
- if ref_sequence_type == 'non_coding':
+ if seq_type == 'p':
+ new_variant, used_variants = self._get_one_variant_for_one_contig_coding(ref_sequence, refdata_var_dict, mummer_variant_list)
+ else:
for mummer_variant in mummer_variant_list:
new_variant, used_variants = self._get_one_variant_for_one_contig_non_coding(refdata_var_dict, mummer_variant)
- else:
- new_variant, used_variants = self._get_one_variant_for_one_contig_coding(ref_sequence, refdata_var_dict, mummer_variant_list)
if new_variant is not None:
variants[contig].append(new_variant)
@@ -307,13 +305,14 @@ class AssemblyVariants:
# for this contig, need to know all the ref sequence and coords it maps to.
# Then report just the unused known variants, as the contig also has these variants
- if ref_sequence_type == 'non_coding':
- new_variants = self._get_remaining_known_ref_variants(known_non_wild_variants_in_ref['n'], used_known_variants, nucmer_coords[contig])
- else:
+ if seq_type == 'p':
new_variants = self._get_remaining_known_ref_variants(known_non_wild_variants_in_ref['p'], used_known_variants, nucmer_coords[contig])
- if ref_sequence_type == 'variants_only':
- new_variants = [x for x in new_variants if len(x[5]) > 0]
+ else:
+ new_variants = self._get_remaining_known_ref_variants(known_non_wild_variants_in_ref['n'], used_known_variants, nucmer_coords[contig])
+
+ if is_variant_only:
+ new_variants = [x for x in new_variants if len(x[5]) > 0]
variants[contig].extend(new_variants)
if len(variants[contig]) == 0:
diff --git a/ariba/cdhit.py b/ariba/cdhit.py
index c49750c..1d85210 100644
--- a/ariba/cdhit.py
+++ b/ariba/cdhit.py
@@ -2,7 +2,7 @@ import tempfile
import shutil
import os
import pyfastaq
-from ariba import common
+from ariba import common, external_progs
class Error (Exception): pass
@@ -10,165 +10,112 @@ class Runner:
def __init__(
self,
infile,
- outfile,
seq_identity_threshold=0.9,
threads=1,
length_diff_cutoff=0.9,
verbose=False,
- cd_hit_est='cd-hit-est',
- rename_suffix='x',
+ min_cluster_number=0
):
if not os.path.exists(infile):
raise Error('File not found: "' + infile + '". Cannot continue')
self.infile = os.path.abspath(infile)
- self.outfile = os.path.abspath(outfile)
self.seq_identity_threshold = seq_identity_threshold
self.threads = threads
self.length_diff_cutoff = length_diff_cutoff
self.verbose = verbose
- self.cd_hit_est = cd_hit_est
- self.rename_suffix = rename_suffix
+ self.min_cluster_number = min_cluster_number
+ extern_progs = external_progs.ExternalProgs(fail_on_error=True)
+ self.cd_hit_est = extern_progs.exe('cdhit')
def fake_run(self):
'''Doesn't actually run cd-hit. Instead, puts each input sequence into its own cluster. So it's as if cdhit was run, but didn't cluster anything'''
- tmpdir = tempfile.mkdtemp(prefix='tmp.run_cd-hit.', dir=os.getcwd())
- tmp_fa = os.path.join(tmpdir, 'cdhit.fa')
clusters = {}
+ used_names = set()
seq_reader = pyfastaq.sequences.file_reader(self.infile)
- f = pyfastaq.utils.open_file_write(tmp_fa)
for seq in seq_reader:
- if seq.id in clusters:
- pyfastaq.utils.close(f)
- shutil.rmtree(tmpdir)
+ if seq.id in used_names:
raise Error('Sequence name "' + seq.id + '" not unique. Cannot continue')
- clusters[seq.id] = {seq.id}
- print(seq, file=f)
+ clusters[str(len(clusters) + self.min_cluster_number)] = {seq.id}
+ used_names.add(seq.id)
- pyfastaq.utils.close(f)
- clusters = self._rename_clusters(clusters, tmp_fa, self.outfile, rename_suffix=self.rename_suffix)
- shutil.rmtree(tmpdir)
return clusters
@staticmethod
def _load_user_clusters_file(filename):
f = pyfastaq.utils.open_file_read(filename)
- seq_to_cluster = {}
- for line in f:
- data = line.rstrip().split()
-
- for seq_name in data:
- if seq_name in seq_to_cluster:
- pyfastaq.utils.close(f)
- raise Error('Error reading clusters file. The sequence "' + seq_name + '" was found more than once in the file ' + filename)
- seq_to_cluster[seq_name] = data[0]
-
- pyfastaq.utils.close(f)
- return seq_to_cluster
-
-
- def run_get_clusters_from_file(self, infile):
- '''Instead of running cdhit, gets the clusters info from the input dict.
- Dict expected to be key=sequence name, value=name of cluster'''
- seq_to_cluster = self._load_user_clusters_file(infile)
- cluster_names = set(seq_to_cluster.values())
- tmpdir = tempfile.mkdtemp(prefix='tmp.run_cd-hit.', dir=os.getcwd())
- tmp_fa = os.path.join(tmpdir, 'cdhit.fa')
clusters = {}
- seq_reader = pyfastaq.sequences.file_reader(self.infile)
- f = pyfastaq.utils.open_file_write(tmp_fa)
+ used_names = set()
- for seq in seq_reader:
- if seq.id in clusters and seq.id in clusters[seq.id]:
+ for line in f:
+ names_list = line.rstrip().split()
+ new_names = set(names_list)
+ if len(names_list) != len(new_names) or not new_names.isdisjoint(used_names):
pyfastaq.utils.close(f)
- shutil.rmtree(tmpdir)
- raise Error('Sequence name "' + seq.id + '" not unique. Cannot continue')
+ raise Error('Error in user-provided clusters file ' + filename + '. Non unique name found at this line:\n' + line)
- if seq.id not in seq_to_cluster:
- raise Error('Error forcing cdhit clustering. Found sequence ' + seq.id + ' in FASTA file, but not in provided clusters info from file ' + infile)
-
- cluster = seq_to_cluster[seq.id]
- if cluster not in clusters:
- clusters[cluster] = set()
-
- clusters[cluster].add(seq.id)
- if seq.id in cluster_names:
- print(seq, file=f)
+ clusters[str(len(clusters))] = new_names
+ used_names.update(new_names)
pyfastaq.utils.close(f)
- clusters = self._rename_clusters(clusters, tmp_fa, self.outfile, rename_suffix=self.rename_suffix)
- shutil.rmtree(tmpdir)
return clusters
- def _get_ids(self, infile):
- seq_reader = pyfastaq.sequences.file_reader(infile)
- return set([seq.id for seq in seq_reader])
+ def run_get_clusters_from_file(self, clusters_infile):
+ '''Instead of running cdhit, gets the clusters info from the input file.'''
+ clusters = self._load_user_clusters_file(clusters_infile)
+ # check that every sequence in the clusters file can be
+ # found in the fasta file
+ seq_reader = pyfastaq.sequences.file_reader(self.infile)
+ names_list_from_fasta_file = [seq.id for seq in seq_reader]
+ names_set_from_fasta_file = set(names_list_from_fasta_file)
- @staticmethod
- def _parse_cluster_info_file(infile, cluster_representatives):
- f = pyfastaq.utils.open_file_read(infile)
- cluster_sets = {}
- found_representatives = {} # store cluster number -> representative name
-
- for line in f:
- data = line.rstrip().split()
- seqname = data[2]
- if not (seqname.startswith('>') and seqname.endswith('...')):
- raise Error('Unexpected format of line from cdhit output file "' + infile + '". Line is:\n' + line)
- seqname = seqname[1:-3]
-
- cluster_number = int(data[0]) # this is the cluster number used by cdhit
- if cluster_number not in cluster_sets:
- cluster_sets[cluster_number] = set()
-
- cluster_sets[cluster_number].add(seqname)
-
- if data[3] == '*':
- found_representatives[cluster_number] = seqname
+ if len(names_set_from_fasta_file) != len(names_list_from_fasta_file):
+ raise Error('At least one duplicate name in fasta file ' + self.infile + '. Cannot continue')
- pyfastaq.utils.close(f)
+ names_from_clusters_file = set()
+ for new_names in clusters.values():
+ names_from_clusters_file.update(new_names)
- if set(found_representatives.values()) != cluster_representatives:
- raise Error('Mismatch in cdhit output sequence names between fasta file and clusters file. Cannot continue')
-
- clusters = {}
- for cluster_number, cluster_name in found_representatives.items():
- clusters[cluster_name] = cluster_sets[cluster_number]
+ if not names_set_from_fasta_file.issubset(names_from_clusters_file):
+ raise Error('Some names in fasta file "' + self.infile + '" not given in cluster file. Cannot continue')
return clusters
@staticmethod
- def _rename_clusters(clusters_dict, infile, outfile, rename_suffix='x'):
- new_clusters_dict = {}
- freader = pyfastaq.sequences.file_reader(infile)
- f_out = pyfastaq.utils.open_file_write(outfile)
+ def _get_clusters_from_bak_file(filename, min_cluster_number=0):
+ f = pyfastaq.utils.open_file_read(filename)
+ clusters = {}
- for seq in freader:
- original_name = seq.id
- assert original_name in clusters_dict
- new_name = original_name.split('.')[0] + '.' + rename_suffix
+ for line in f:
+ try:
+ cluster_number, length, name, *spam = line.rstrip().split()
+ cluster_number = int(cluster_number) + min_cluster_number
+ except:
+ pyfastaq.utils.close(f)
+ raise Error('Error parsing cdhit output at this line:\n' + line)
- if new_name in new_clusters_dict:
- suffix = 2
- while new_name + '.' + str(suffix) in new_clusters_dict:
- suffix += 1
- new_name += '.' + str(suffix)
+ # keep cluster names as strings in case we want to change them
+ # at a later date.
+ cluster = str(cluster_number)
- new_clusters_dict[new_name] = clusters_dict[original_name]
- seq.id = new_name
- print(seq, file=f_out)
+ if not (name.startswith('>') and name.endswith('...')):
+ pyfastaq.utils.close(f)
+ raise Error('Error getting sequence name from cdhit output at this line:\n' + line)
- pyfastaq.utils.close(f_out)
+ if cluster not in clusters:
+ clusters[cluster] = set()
+ clusters[str(cluster)].add(name[1:-3])
- return new_clusters_dict
+ pyfastaq.utils.close(f)
+ return clusters
def run(self):
@@ -188,10 +135,7 @@ class Runner:
])
common.syscall(cmd, verbose=self.verbose)
- cluster_representatives = self._get_ids(cdhit_fasta)
- clusters = self._parse_cluster_info_file(cluster_info_outfile, cluster_representatives)
- clusters = self._rename_clusters(clusters, cdhit_fasta, self.outfile, rename_suffix=self.rename_suffix)
-
+ clusters = self._get_clusters_from_bak_file(cluster_info_outfile, self.min_cluster_number)
shutil.rmtree(tmpdir)
return clusters
diff --git a/ariba/cluster.py b/ariba/cluster.py
index 5ee9db7..8e1c4ca 100644
--- a/ariba/cluster.py
+++ b/ariba/cluster.py
@@ -6,7 +6,7 @@ import math
import shutil
import sys
import pyfastaq
-from ariba import assembly, assembly_compare, assembly_variants, bam_parse, best_seq_chooser, external_progs, flag, mapping, report, samtools_variants
+from ariba import assembly, assembly_compare, assembly_variants, external_progs, flag, mapping, read_filter, report, samtools_variants
class Error (Exception): pass
@@ -17,15 +17,15 @@ class Cluster:
root_dir,
name,
refdata,
- total_reads,
- total_reads_bases,
+ total_reads=None,
+ total_reads_bases=None,
fail_file=None,
read_store=None,
reference_names=None,
logfile=None,
assembly_coverage=50,
assembly_kmer=21,
- assembler='spades',
+ assembler='fermilite',
max_insert=1000,
min_scaff_depth=10,
nucmer_min_id=90,
@@ -42,7 +42,6 @@ class Cluster:
assembled_threshold=0.95,
unique_threshold=0.03,
max_gene_nt_extend=30,
- bowtie2_preset='very-sensitive-local',
spades_other_options=None,
clean=True,
extern_progs=None,
@@ -90,8 +89,6 @@ class Cluster:
self.bcf_min_dv_over_dp = bcf_min_dv_over_dp
self.bcf_min_qual = bcf_min_qual
- self.bowtie2_preset = bowtie2_preset
-
self.threads = threads
self.assembled_threshold = assembled_threshold
self.unique_threshold = unique_threshold
@@ -155,15 +152,19 @@ class Cluster:
def _input_files_exist(self):
assert self.read_store is None
- if not (os.path.exists(self.all_reads1) and os.path.exists(self.all_reads2)):
- raise Error('Error making cluster. Reads files not found')
if not os.path.exists(self.references_fa):
raise Error('Error making cluster. References fasta not found')
def _set_up_input_files(self):
+ if self.logfile is None:
+ self.logfile = os.path.join(self.root_dir, 'log.txt')
+
if os.path.exists(self.root_dir):
self._input_files_exist()
+ seqreader = pyfastaq.sequences.file_reader(self.references_fa)
+ self.reference_names = set([x.id for x in seqreader])
+ self.log_fh = pyfastaq.utils.open_file_write(self.logfile)
else:
assert self.read_store is not None
assert self.reference_names is not None
@@ -171,9 +172,16 @@ class Cluster:
os.mkdir(self.root_dir)
except:
raise Error('Error making directory ' + self.root_dir)
+
+ self.refdata.write_seqs_to_fasta(self.references_fa, self.reference_names)
+ self.log_fh = pyfastaq.utils.open_file_write(self.logfile)
self.read_store.get_reads(self.name, self.all_reads1, self.all_reads2)
+ rfilter = read_filter.ReadFilter(self.read_store, self.references_fa, self.name, self.log_fh, self.extern_progs)
+ self.total_reads, self.total_reads_bases = rfilter.run(self.all_reads1, self.all_reads2)
self.refdata.write_seqs_to_fasta(self.references_fa, self.reference_names)
+ self.longest_ref_length = max([len(self.refdata.sequence(name)) for name in self.reference_names])
+
def _clean_file(self, filename):
if self.clean:
@@ -210,9 +218,7 @@ class Cluster:
@staticmethod
- def _number_of_reads_for_assembly(reference_fa, insert_size, total_bases, total_reads, coverage):
- file_reader = pyfastaq.sequences.file_reader(reference_fa)
- ref_length = sum([len(x) for x in file_reader])
+ def _number_of_reads_for_assembly(ref_length, insert_size, total_bases, total_reads, coverage):
assert ref_length > 0
ref_length += 2 * insert_size
mean_read_length = total_bases / total_reads
@@ -266,11 +272,6 @@ class Cluster:
if not os.path.exists(fname):
raise Error('File ' + fname + ' not found. Cannot continue')
- if self.logfile is None:
- self.logfile = os.path.join(self.root_dir, 'log.txt')
-
- self.log_fh = pyfastaq.utils.open_file_write(self.logfile)
-
original_dir = os.getcwd()
os.chdir(self.root_dir)
@@ -296,40 +297,25 @@ class Cluster:
def _run(self):
print('{:_^79}'.format(' LOG FILE START ' + self.name + ' '), file=self.log_fh, flush=True)
- print('Choosing best reference sequence:', file=self.log_fh, flush=True)
- seq_chooser = best_seq_chooser.BestSeqChooser(
- self.all_reads1,
- self.all_reads2,
- self.references_fa,
- self.log_fh,
- samtools_exe=self.extern_progs.exe('samtools'),
- bowtie2_exe=self.extern_progs.exe('bowtie2'),
- bowtie2_preset=self.bowtie2_preset,
- threads=1,
- )
- self.ref_sequence = seq_chooser.best_seq(self.reference_fa)
- self._clean_file(self.references_fa)
- self._clean_file(self.references_fa + '.fai')
-
- if self.ref_sequence is None:
- self.status_flag.add('ref_seq_choose_fail')
+ if self.total_reads == 0:
+ print('No reads left after filtering with cdhit', file=self.log_fh, flush=True)
self.assembled_ok = False
else:
- wanted_reads = self._number_of_reads_for_assembly(self.reference_fa, self.reads_insert, self.total_reads_bases, self.total_reads, self.assembly_coverage)
+ wanted_reads = self._number_of_reads_for_assembly(self.longest_ref_length, self.reads_insert, self.total_reads_bases, self.total_reads, self.assembly_coverage)
made_reads = self._make_reads_for_assembly(wanted_reads, self.total_reads, self.all_reads1, self.all_reads2, self.reads_for_assembly1, self.reads_for_assembly2, random_seed=self.random_seed)
print('\nUsing', made_reads, 'from a total of', self.total_reads, 'for assembly.', file=self.log_fh, flush=True)
print('Assembling reads:', file=self.log_fh, flush=True)
- self.ref_sequence_type = self.refdata.sequence_type(self.ref_sequence.id)
- assert self.ref_sequence_type is not None
+
self.assembly = assembly.Assembly(
self.reads_for_assembly1,
self.reads_for_assembly2,
self.reference_fa,
+ self.references_fa,
self.assembly_dir,
self.final_assembly_fa,
self.final_assembly_bam,
self.log_fh,
- scaff_name_prefix=self.ref_sequence.id,
+ scaff_name_prefix=self.name,
kmer=self.assembly_kmer,
assembler=self.assembler,
spades_other_options=self.spades_other_options,
@@ -348,7 +334,13 @@ class Cluster:
print('Deleting Assembly directory', self.assembly_dir, file=self.log_fh, flush=True)
shutil.rmtree(self.assembly_dir)
- if self.assembled_ok:
+
+ if self.assembled_ok and self.assembly.ref_seq_name is not None:
+ self.ref_sequence = self.refdata.sequence(self.assembly.ref_seq_name)
+ is_gene, is_variant_only = self.refdata.sequence_type(self.ref_sequence.id)
+ self.is_gene = '1' if is_gene == 'p' else '0'
+ self.is_variant_only = '1' if is_variant_only else '0'
+
print('\nAssembly was successful\n\nMapping reads to assembly:', file=self.log_fh, flush=True)
mapping.run_bowtie2(
@@ -360,7 +352,7 @@ class Cluster:
sort=True,
samtools=self.extern_progs.exe('samtools'),
bowtie2=self.extern_progs.exe('bowtie2'),
- bowtie2_preset=self.bowtie2_preset,
+ bowtie2_preset='very-sensitive-local',
verbose=True,
verbose_filehandle=self.log_fh
)
@@ -398,10 +390,10 @@ class Cluster:
for var_list in self.assembly_variants.values():
for var in var_list:
if var[3] not in ['.', 'SYN', None]:
- self.status_flag.add('has_nonsynonymous_variants')
+ self.status_flag.add('has_variant')
break
- if self.status_flag.has('has_nonsynonymous_variants'):
+ if self.status_flag.has('has_variant'):
break
@@ -425,9 +417,12 @@ class Cluster:
if self.samtools_vars.variants_in_coords(self.assembly_compare.assembly_match_coords(), self.samtools_vars.vcf_file):
self.status_flag.add('variants_suggest_collapsed_repeat')
- else:
+ elif not self.assembled_ok:
print('\nAssembly failed\n', file=self.log_fh, flush=True)
self.status_flag.add('assembly_fail')
+ elif self.assembly.ref_seq_name is None:
+ print('\nCould not get closest reference sequence\n', file=self.log_fh, flush=True)
+ self.status_flag.add('ref_seq_choose_fail')
print('\nMaking report lines', file=self.log_fh, flush=True)
diff --git a/ariba/clusters.py b/ariba/clusters.py
index 1606fdb..cd4c243 100644
--- a/ariba/clusters.py
+++ b/ariba/clusters.py
@@ -1,6 +1,5 @@
import signal
import time
-import atexit
import os
import copy
import tempfile
@@ -8,11 +7,10 @@ import pickle
import itertools
import sys
import shutil
-import openpyxl
import multiprocessing
-import pysam
import pyfastaq
-from ariba import cluster, common, mapping, histogram, read_store, report, report_filter, reference_data
+import minimap_ariba
+from ariba import cluster, common, histogram, read_store, report, report_filter, reference_data
class Error (Exception): pass
@@ -57,7 +55,7 @@ class Clusters:
assembly_coverage=100,
threads=1,
verbose=False,
- assembler='spades',
+ assembler='fermilite',
spades_other=None,
max_insert=1000,
min_scaff_depth=10,
@@ -67,7 +65,6 @@ class Clusters:
assembled_threshold=0.95,
unique_threshold=0.03,
max_gene_nt_extend=30,
- bowtie2_preset='very-sensitive-local',
clean=True,
tmp_dir=None,
):
@@ -77,6 +74,8 @@ class Clusters:
self.reads_2 = os.path.abspath(reads_2)
self.outdir = os.path.abspath(outdir)
self.extern_progs = extern_progs
+ self.clusters_tsv = os.path.abspath(os.path.join(refdata_dir, '02.cdhit.clusters.tsv'))
+ self.all_ref_seqs_fasta = os.path.abspath(os.path.join(refdata_dir, '02.cdhit.all.fa'))
if version_report_lines is None:
self.version_report_lines = []
@@ -87,7 +86,7 @@ class Clusters:
self.logs_dir = os.path.join(self.outdir, 'Logs')
self.assembler = assembler
- assert self.assembler in ['spades']
+ assert self.assembler in ['fermilite']
self.assembly_kmer = assembly_kmer
self.assembly_coverage = assembly_coverage
self.spades_other = spades_other
@@ -98,14 +97,13 @@ class Clusters:
self.bam = self.bam_prefix + '.bam'
self.report_file_all_tsv = os.path.join(self.outdir, 'report.all.tsv')
self.report_file_all_xls = os.path.join(self.outdir, 'report.all.xls')
- self.report_file_filtered_prefix = os.path.join(self.outdir, 'report')
+ self.report_file_filtered = os.path.join(self.outdir, 'report.tsv')
self.catted_assembled_seqs_fasta = os.path.join(self.outdir, 'assembled_seqs.fa.gz')
self.catted_genes_matching_refs_fasta = os.path.join(self.outdir, 'assembled_genes.fa.gz')
self.threads = threads
self.verbose = verbose
self.max_insert = max_insert
- self.bowtie2_preset = bowtie2_preset
self.insert_hist_bin = 10
self.insert_hist = histogram.Histogram(self.insert_hist_bin)
@@ -216,87 +214,45 @@ class Clusters:
if not os.path.exists(indir):
raise Error('Error loading reference data. Input directory ' + indir + ' not found. Cannot continue')
- variants_only_fa = os.path.join(indir, 'refcheck.01.check_variants.variants_only.fa')
- presence_absence_fa = os.path.join(indir, 'refcheck.01.check_variants.presence_absence.fa')
- non_coding_fa = os.path.join(indir, 'refcheck.01.check_variants.non_coding.fa')
- metadata_tsv = os.path.join(indir, 'refcheck.01.check_variants.tsv')
- info_file = os.path.join(indir, 'info.txt')
- clusters_file = os.path.join(indir, 'cdhit.clusters.pickle')
+ fasta_file = os.path.join(indir, '02.cdhit.all.fa')
+ metadata_file = os.path.join(indir, '01.filter.check_metadata.tsv')
+ info_file = os.path.join(indir, '00.info.txt')
+ clusters_pickle_file = os.path.join(indir, '02.cdhit.clusters.pickle')
params = Clusters._load_reference_data_info_file(info_file)
refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa if os.path.exists(presence_absence_fa) else None,
- variants_only_fa=variants_only_fa if os.path.exists(variants_only_fa) else None,
- non_coding_fa=non_coding_fa if os.path.exists(non_coding_fa) else None,
- metadata_tsv=metadata_tsv if os.path.exists(metadata_tsv) else None,
+ [fasta_file],
+ [metadata_file],
genetic_code=params['genetic_code'],
)
- with open(clusters_file, 'rb') as f:
+ with open(clusters_pickle_file, 'rb') as f:
cluster_ids = pickle.load(f)
return refdata, cluster_ids
- def _map_reads_to_clustered_genes(self):
- mapping.run_bowtie2(
+ def _map_and_cluster_reads(self):
+ if self.verbose:
+ print('{:_^79}'.format(' Mapping reads to clustered genes '), flush=True)
+
+ minimap_prefix = 'minimap'
+
+ self._minimap_reads_to_all_ref_seqs(
+ self.clusters_tsv,
+ self.all_ref_seqs_fasta,
self.reads_1,
self.reads_2,
- self.cdhit_cluster_representatives_fa,
- self.bam_prefix,
- threads=self.threads,
- samtools=self.extern_progs.exe('samtools'),
- bowtie2=self.extern_progs.exe('bowtie2'),
- bowtie2_preset=self.bowtie2_preset,
- verbose=self.verbose,
- remove_both_unmapped=True,
+ minimap_prefix,
+ verbose=self.verbose
)
+ if self.verbose:
+ print('Finished mapping\n')
+ print('{:_^79}'.format(' Generating clusters '), flush=True)
- def _bam_to_clusters_reads(self):
- '''Sets up ReadStore of reads for all the clusters. Also gathers histogram data of insert size'''
- reads_file_for_read_store = os.path.join(self.outdir, 'reads')
- f_out = pyfastaq.utils.open_file_write(reads_file_for_read_store)
-
- sam_reader = pysam.Samfile(self.bam, "rb")
- sam1 = None
- self.proper_pairs = 0
-
- for s in sam_reader.fetch(until_eof=True):
- if sam1 is None:
- sam1 = s
- continue
-
- ref_seqs = set()
- if not s.is_unmapped:
- ref_seqs.add(sam_reader.getrname(s.tid))
- if not sam1.is_unmapped:
- ref_seqs.add(sam_reader.getrname(sam1.tid))
-
- read1 = mapping.sam_to_fastq(sam1)
- read2 = mapping.sam_to_fastq(s)
- if read1.id.endswith('/2'):
- read1, read2 = read2, read1
-
- insert = mapping.sam_pair_to_insert(s, sam1)
- if insert is not None:
- self.insert_hist.add(insert)
- self.proper_pairs += 1
-
- for ref in ref_seqs:
- if ref not in self.cluster_to_dir:
- new_dir = os.path.join(self.tmp_dir, ref)
- self.cluster_to_dir[ref] = new_dir
- if self.verbose:
- print('New cluster with reads that hit:', ref, flush=True)
-
- self.cluster_read_counts[ref] = self.cluster_read_counts.get(ref, 0) + 2
- self.cluster_base_counts[ref] = self.cluster_base_counts.get(ref, 0) + len(read1) + len(read2)
- print(ref, self.cluster_read_counts[ref] - 1, read1.seq, read1.qual, sep='\t', file=f_out)
- print(ref, self.cluster_read_counts[ref], read2.seq, read2.qual, sep='\t', file=f_out)
-
- sam1 = None
-
- pyfastaq.utils.close(f_out)
+ self.cluster_to_rep, self.cluster_read_counts, self.cluster_base_counts, self.insert_hist, self.proper_pairs = self._load_minimap_files(minimap_prefix, self.insert_hist_bin)
+ self.cluster_to_dir = {x: os.path.join(self.tmp_dir, x) for x in self.cluster_to_rep}
+ reads_file_for_read_store = minimap_prefix + '.reads'
if len(self.cluster_read_counts):
if self.verbose:
@@ -312,11 +268,83 @@ class Clusters:
os.unlink(reads_file_for_read_store)
+ if self.clean:
+ for suffix in ['cluster2representative', 'clusterCounts', 'insertHistogram', 'properPairs']:
+ filename = minimap_prefix + '.' + suffix
+ try:
+ os.unlink(filename)
+ except:
+ pass
+
if self.verbose:
- print('Found', self.proper_pairs, 'proper read pairs')
+ print('Found', self.proper_pairs, 'proper read pairs from minimap')
print('Total clusters to perform local assemblies:', len(self.cluster_to_dir), flush=True)
+ @staticmethod
+ def _minimap_reads_to_all_ref_seqs(clusters_tsv, ref_fasta, reads_1, reads_2, outprefix, verbose=False):
+ got = minimap_ariba.minimap_ariba(clusters_tsv, ref_fasta, reads_1, reads_2, outprefix)
+ if (got != 0):
+ raise Error('Error running minimap. Cannot continue')
+
+
+ @classmethod
+ def _load_minimap_out_cluster2representative(cls, infile):
+ cluster2rep = {}
+
+ with open(infile) as f:
+ for line in f:
+ cluster, rep = line.rstrip().split('\t')
+ cluster2rep[cluster] = rep
+
+ return cluster2rep
+
+
+ @classmethod
+ def _load_minimap_out_cluster_counts(cls, infile):
+ reads = {}
+ bases = {}
+
+ with open(infile) as f:
+ for line in f:
+ cluster, read, base = line.rstrip().split('\t')
+ reads[cluster] = int(read)
+ bases[cluster] = int(base)
+
+ return reads, bases
+
+
+ @classmethod
+ def _load_minimap_insert_histogram(cls, infile, bin_size):
+ hist = histogram.Histogram(bin_size)
+
+ with open(infile) as f:
+ for line in f:
+ value, count = line.rstrip().split('\t')
+ hist.add(int(value), count=int(count))
+
+ return hist
+
+
+ @classmethod
+ def _load_minimap_proper_pairs(cls, infile):
+ with open(infile) as f:
+ for line in f:
+ pairs = int(line.rstrip())
+ break
+
+ return pairs
+
+
+ @staticmethod
+ def _load_minimap_files(inprefix, hist_bin_size):
+ cluster2rep = Clusters._load_minimap_out_cluster2representative(inprefix + '.cluster2representative')
+ cluster_read_count, cluster_base_count = Clusters._load_minimap_out_cluster_counts(inprefix + '.clusterCounts')
+ insert_hist = Clusters._load_minimap_insert_histogram(inprefix + '.insertHistogram', hist_bin_size)
+ proper_pairs = Clusters._load_minimap_proper_pairs(inprefix + '.properPairs')
+ return cluster2rep, cluster_read_count, cluster_base_count, insert_hist, proper_pairs
+
+
def _set_insert_size_data(self):
if len(self.insert_hist) == 0:
return False
@@ -341,53 +369,44 @@ class Clusters:
cluster_list = []
self.log_files = []
- for seq_type in sorted(self.cluster_ids):
- if self.cluster_ids[seq_type] is None:
- continue
-
- for seq_name in sorted(self.cluster_ids[seq_type]):
- if seq_name not in self.cluster_to_dir:
- continue
- counter += 1
- if self.verbose:
- print('Constructing cluster', seq_name + '.', counter, 'of', str(len(self.cluster_to_dir)))
- new_dir = self.cluster_to_dir[seq_name]
- self.log_files.append(os.path.join(self.logs_dir, seq_name + '.log'))
-
- cluster_list.append(cluster.Cluster(
- new_dir,
- seq_name,
- self.refdata,
- self.cluster_read_counts[seq_name],
- self.cluster_base_counts[seq_name],
- fail_file=os.path.join(self.fails_dir, seq_name),
- read_store=self.read_store,
- reference_names=self.cluster_ids[seq_type][seq_name],
- logfile=self.log_files[-1],
- assembly_coverage=self.assembly_coverage,
- assembly_kmer=self.assembly_kmer,
- assembler=self.assembler,
- max_insert=self.insert_proper_pair_max,
- min_scaff_depth=self.min_scaff_depth,
- nucmer_min_id=self.nucmer_min_id,
- nucmer_min_len=self.nucmer_min_len,
- nucmer_breaklen=self.nucmer_breaklen,
- reads_insert=self.insert_size,
- sspace_k=self.min_scaff_depth,
- sspace_sd=self.insert_sspace_sd,
- threads=1, # clusters now run in parallel, so this should always be 1!
- bcf_min_dp=10, # let the user change this in a future version?
- bcf_min_dv=5, # let the user change this in a future version?
- bcf_min_dv_over_dp=0.3, # let the user change this in a future version?
- bcf_min_qual=20, # let the user change this in a future version?
- assembled_threshold=self.assembled_threshold,
- unique_threshold=self.unique_threshold,
- max_gene_nt_extend=self.max_gene_nt_extend,
- bowtie2_preset=self.bowtie2_preset,
- spades_other_options=self.spades_other,
- clean=self.clean,
- extern_progs=self.extern_progs,
- ))
+ for cluster_name in sorted(self.cluster_to_dir):
+ counter += 1
+ if self.verbose:
+ print('Constructing cluster ', cluster_name, ' (', counter, ' of ', len(self.cluster_to_dir), ')', sep='')
+ new_dir = self.cluster_to_dir[cluster_name]
+ self.log_files.append(os.path.join(self.logs_dir, cluster_name + '.log'))
+
+ cluster_list.append(cluster.Cluster(
+ new_dir,
+ cluster_name,
+ self.refdata,
+ fail_file=os.path.join(self.fails_dir, cluster_name),
+ read_store=self.read_store,
+ reference_names=self.cluster_ids[cluster_name],
+ logfile=self.log_files[-1],
+ assembly_coverage=self.assembly_coverage,
+ assembly_kmer=self.assembly_kmer,
+ assembler=self.assembler,
+ max_insert=self.insert_proper_pair_max,
+ min_scaff_depth=self.min_scaff_depth,
+ nucmer_min_id=self.nucmer_min_id,
+ nucmer_min_len=self.nucmer_min_len,
+ nucmer_breaklen=self.nucmer_breaklen,
+ reads_insert=self.insert_size,
+ sspace_k=self.min_scaff_depth,
+ sspace_sd=self.insert_sspace_sd,
+ threads=1, # clusters now run in parallel, so this should always be 1!
+ bcf_min_dp=10, # let the user change this in a future version?
+ bcf_min_dv=5, # let the user change this in a future version?
+ bcf_min_dv_over_dp=0.3, # let the user change this in a future version?
+ bcf_min_qual=20, # let the user change this in a future version?
+ assembled_threshold=self.assembled_threshold,
+ unique_threshold=self.unique_threshold,
+ max_gene_nt_extend=self.max_gene_nt_extend,
+ spades_other_options=self.spades_other,
+ clean=self.clean,
+ extern_progs=self.extern_progs,
+ ))
try:
if self.threads > 1:
@@ -406,18 +425,13 @@ class Clusters:
@staticmethod
- def _write_reports(clusters_in, tsv_out, xls_out=None):
+ def _write_report(clusters_in, tsv_out):
columns = copy.copy(report.columns)
columns[0] = '#' + columns[0]
f = pyfastaq.utils.open_file_write(tsv_out)
print('\t'.join(columns), file=f)
-
columns[0] = columns[0][1:]
- workbook = openpyxl.Workbook()
- worksheet = workbook.worksheets[0]
- worksheet.title = 'ARIBA_report'
- worksheet.append(columns)
for seq_name in sorted(clusters_in):
if clusters_in[seq_name].report_lines is None:
@@ -425,11 +439,8 @@ class Clusters:
for line in clusters_in[seq_name].report_lines:
print(line, file=f)
- worksheet.append(line.split('\t'))
pyfastaq.utils.close(f)
- if xls_out is not None:
- workbook.save(xls_out)
def _write_catted_assembled_seqs_fasta(self, outfile):
@@ -511,19 +522,7 @@ class Clusters:
cwd = os.getcwd()
os.chdir(self.outdir)
self.write_versions_file(cwd)
-
- if self.verbose:
- print('{:_^79}'.format(' Mapping reads to clustered genes '), flush=True)
- self._map_reads_to_clustered_genes()
-
- if self.verbose:
- print('Finished mapping\n')
- print('{:_^79}'.format(' Generating clusters '), flush=True)
- self._bam_to_clusters_reads()
- if self.clean:
- if self.verbose:
- print('Deleting BAM', self.bam, flush=True)
- os.unlink(self.bam)
+ self._map_and_cluster_reads()
if len(self.cluster_to_dir) > 0:
got_insert_data_ok = self._set_insert_size_data()
@@ -550,12 +549,12 @@ class Clusters:
if self.verbose:
print('{:_^79}'.format(' Writing reports '), flush=True)
print('Making', self.report_file_all_tsv)
- self._write_reports(self.clusters, self.report_file_all_tsv)
+ self._write_report(self.clusters, self.report_file_all_tsv)
if self.verbose:
- print('Making', self.report_file_filtered_prefix + '.tsv')
+ print('Making', self.report_file_filtered)
rf = report_filter.ReportFilter(infile=self.report_file_all_tsv)
- rf.run(self.report_file_filtered_prefix)
+ rf.run(self.report_file_filtered)
if self.verbose:
print()
diff --git a/ariba/ext/fml-asm_ariba.cpp b/ariba/ext/fml-asm_ariba.cpp
new file mode 100644
index 0000000..eee0e44
--- /dev/null
+++ b/ariba/ext/fml-asm_ariba.cpp
@@ -0,0 +1,194 @@
+#include <unistd.h>
+#include <stdlib.h>
+#include <stdio.h>
+#include <iostream>
+#include <fstream>
+#include <vector>
+#include <string>
+#include <algorithm>
+#include "Python.h"
+#include "fml.h"
+
+
+class Assembly
+{
+public:
+ Assembly(int numberOfUnitigs, fml_utg_t *unitigs, unsigned short minCountIn);
+ void printStats(std::ostream& outStream) const;
+ void toFile(std::string filename) const;
+
+ uint32_t numberOfContigs;
+ unsigned short minCount;
+ uint32_t longestContig;
+ float meanLength;
+ std::vector<std::string> sequences;
+};
+
+
+Assembly::Assembly(int numberOfUnitigs, fml_utg_t *unitigs, unsigned short minCountIn)
+{
+ numberOfContigs = numberOfUnitigs;
+ minCount = minCountIn;
+ longestContig = 0;
+ meanLength = 0;
+ uint32_t lengthSum = 0;
+
+ if (numberOfContigs == 0)
+ {
+ return;
+ }
+
+ for (uint32_t i = 0; i < numberOfContigs; ++i)
+ {
+ const fml_utg_t *unitig = &unitigs[i];
+ sequences.push_back(unitig->seq);
+ longestContig = ((uint32_t) unitig->len) > longestContig ? unitig->len : longestContig;
+ lengthSum += unitig->len;
+ }
+
+ meanLength = 1.0 * lengthSum / numberOfContigs;
+}
+
+
+void Assembly::printStats(std::ostream& outStream) const
+{
+ outStream << minCount << '\t' << numberOfContigs << '\t' << meanLength << '\t' << longestContig << std::endl;
+}
+
+
+void Assembly::toFile(std::string filename) const
+{
+ std::ofstream ofs(filename.c_str());
+ if (!ofs.good())
+ {
+ std::cerr << "[ariba_fermilite] Error opening sequence output file '" << filename << "'. Cannot continue" << std::endl;
+ exit(1);
+ }
+
+ for (unsigned int i = 0; i < sequences.size(); i++)
+ {
+ ofs << ">contig." << i << '\n'
+ << sequences[i] << '\n';
+ }
+
+ ofs.close();
+}
+
+
+bool assemblyCompare(const Assembly& lhs, const Assembly& rhs) {
+ if (lhs.longestContig != rhs.longestContig)
+ {
+ return lhs.longestContig > rhs.longestContig;
+ }
+ if (lhs.meanLength != rhs.meanLength)
+ {
+ return lhs.meanLength > rhs.meanLength;
+ }
+ if (lhs.numberOfContigs != rhs.numberOfContigs)
+ {
+ return lhs.numberOfContigs < rhs.numberOfContigs;
+ }
+
+ return lhs.minCount < rhs.minCount;
+}
+
+
+int assemble(char *readsFile, char *fastaOut, char* logfileOut);
+
+
+static PyObject * main_wrapper(PyObject * self, PyObject * args)
+{
+ char *readsFile;
+ char *fastaOut;
+ char *logOut;
+ int gotFromMain = 1;
+
+ // parse arguments
+ if (!PyArg_ParseTuple(args, "sss", &readsFile, &fastaOut, &logOut)) {
+ return NULL;
+ }
+
+ gotFromMain = assemble(readsFile, fastaOut, logOut);
+ return PyLong_FromLong((long) gotFromMain);
+}
+
+
+static PyMethodDef fermiliteMethods[] = {
+ { "fermilite_ariba", main_wrapper, METH_VARARGS, "fermilite ariba" },
+ { NULL, NULL, 0, NULL }
+};
+
+
+static struct PyModuleDef fermiliteModule = {
+ PyModuleDef_HEAD_INIT,
+ "fermilite_ariba", /* name of module */
+ NULL, /* module documentation, may be NULL */
+ -1, /* size of per-interpreter state of the module,
+ or -1 if the module keeps state in global variables. */
+ fermiliteMethods
+};
+
+
+PyMODINIT_FUNC
+PyInit_fermilite_ariba(void)
+{
+ return PyModule_Create(&fermiliteModule);
+}
+
+
+int assemble(char *readsFile, char *fastaOut, char* logfileOut)
+{
+ fml_opt_t opt;
+ int n_seqs, n_utg;
+ bseq1_t *seqs;
+ fml_opt_init(&opt);
+ opt.max_cnt = 10000;
+ opt.min_asm_ovlp = 15;
+ opt.mag_opt.flag |= MAG_F_AGGRESSIVE;
+ std::vector<unsigned short> minCounts;
+ minCounts.push_back(4);
+ minCounts.push_back(8);
+ minCounts.push_back(12);
+ minCounts.push_back(16);
+ minCounts.push_back(20);
+ minCounts.push_back(25);
+ minCounts.push_back(30);
+ std::vector<Assembly> assemblies;
+ std::ofstream ofs(logfileOut);
+
+ if (!ofs.good())
+ {
+ std::cerr << "[ariba_fermilite] Error opening log output file '" << logfileOut << "'. Cannot continue" << std::endl;
+ return 1;
+ }
+
+ ofs << "Fermilite assembly stats:\n"
+ << "Min_count\tContig_number\tMean_length\tLongest" << std::endl;
+
+ for (std::vector<unsigned short>::iterator minCountIter = minCounts.begin(); minCountIter != minCounts.end(); minCountIter++)
+ {
+ opt.min_cnt = *minCountIter;
+
+ // need to get the reads from the file every time, instead of before
+ // the loop because fml_assemble() destroys them :(
+ seqs = bseq_read(readsFile, &n_seqs);
+ fml_utg_t *utg;
+ utg = fml_assemble(&opt, n_seqs, seqs, &n_utg);
+ Assembly a(n_utg, utg, *minCountIter);
+ assemblies.push_back(a);
+ a.printStats(ofs);
+ fml_utg_destroy(n_utg, utg);
+ }
+
+ if (assemblies.size() == 0 || assemblies[0].numberOfContigs == 0)
+ {
+ ofs << "Didn't get any assemblies!\n";
+ return 1;
+ }
+
+ std::sort(assemblies.begin(), assemblies.end(), &assemblyCompare);
+ ofs << "Best assembly is from min_count " << assemblies[0].minCount << '\n';
+ assemblies[0].toFile(fastaOut);
+ ofs.close();
+ return 0;
+}
diff --git a/ariba/ext/minimap_ariba.cpp b/ariba/ext/minimap_ariba.cpp
new file mode 100644
index 0000000..612945e
--- /dev/null
+++ b/ariba/ext/minimap_ariba.cpp
@@ -0,0 +1,351 @@
+#include <iostream>
+#include <set>
+#include <sstream>
+#include <fstream>
+#include <stdlib.h>
+#include <stdlib.h>
+#include <assert.h>
+#include <stdio.h>
+#include <zlib.h>
+#include <map>
+#include <vector>
+#include <algorithm>
+#include "minimap.h"
+#include "kseq.h"
+#include "Python.h"
+KSEQ_INIT(gzFile, gzread)
+
+
+typedef std::vector<std::pair<uint32_t, bool> > MapPositionVector;
+
+void loadClusters(std::string& filename, std::map<std::string, std::string>& refnameToCluster);
+void chooseCluster(std::string outfile, std::map<std::string, uint64_t>& refnameToScore, std::map<std::string, std::string>& refnameToCluster);
+void writeClusterCountsFile(std::string outfile, const std::map<std::string, uint64_t>& readCounters, const std::map<std::string, uint64_t>& baseCounters);
+void writeInsertHistogramFile(std::string outfile, const std::map<uint32_t, uint32_t>& insertHist);
+void writeProperPairsFile(std::string outfile, uint32_t properPairs);
+
+int run_minimap(char *clustersFileIn, char *refFileIn, char *readsFile1In, char *readsFile2In, char *outprefixIn);
+
+static PyObject * main_wrapper(PyObject * self, PyObject * args)
+{
+ char *clustersFile;
+ char *refFile;
+ char *readsFile1;
+ char *readsFile2;
+ char *outprefix;
+ int gotFromMain = 1;
+
+ // parse arguments
+ if (!PyArg_ParseTuple(args, "sssss", &clustersFile, &refFile, &readsFile1, &readsFile2, &outprefix)) {
+ return NULL;
+ }
+
+ gotFromMain = run_minimap(clustersFile, refFile, readsFile1, readsFile2, outprefix);
+ return PyLong_FromLong((long) gotFromMain);
+}
+
+
+static PyMethodDef minimapMethods[] = {
+ { "minimap_ariba", main_wrapper, METH_VARARGS, "minimap ariba" },
+ { NULL, NULL, 0, NULL }
+};
+
+
+static struct PyModuleDef minimapModule = {
+ PyModuleDef_HEAD_INIT,
+ "minimap_ariba", /* name of module */
+ NULL, /* module documentation, may be NULL */
+ -1, /* size of per-interpreter state of the module,
+ or -1 if the module keeps state in global variables. */
+ minimapMethods
+};
+
+PyMODINIT_FUNC
+PyInit_minimap_ariba(void)
+{
+ return PyModule_Create(&minimapModule);
+}
+
+
+
+int run_minimap(char *clustersFileIn, char *refFileIn, char *readsFile1In, char *readsFile2In, char *outprefixIn)
+{
+ mm_verbose = 0;
+ std::map<std::string, uint64_t> refnameToScore;
+ std::map<std::string, std::string> refnameToCluster;
+ std::string clustersFile(clustersFileIn);
+ loadClusters(clustersFile, refnameToCluster);
+ std::map<std::string, uint64_t> readCounters;
+ std::map<std::string, uint64_t> baseCounters;
+ std::map<uint32_t, uint32_t> insertHist;
+ uint32_t properPairs = 0;
+ std::string outprefix(outprefixIn);
+ std::string readsOutfile = outprefix + ".reads";
+ std::ofstream ofs;
+ ofs.open(readsOutfile.c_str());
+ if (!ofs.good())
+ {
+ std::cerr << "[ariba_minimap] Error opening reads output file '" << readsOutfile << "'. Cannot continue" << std::endl;
+ return 1;
+ }
+
+ // open query file for reading; you may use your favorite FASTA/Q parser
+ gzFile infile1 = gzopen(readsFile1In, "r");
+ if (!infile1)
+ {
+ std::cerr << "[ariba_minimap] Error opening file " << readsFile1In << std::endl;
+ return 1;
+ }
+ gzFile infile2 = gzopen(readsFile2In, "r");
+ if (!infile2)
+ {
+ std::cerr << "[ariba_minimap] Error opening file " << readsFile2In << std::endl;
+ return 1;
+ }
+ kseq_t *ks1 = kseq_init(infile1);
+ kseq_t *ks2 = kseq_init(infile2);
+
+ // create index for target; we are creating one index for all target sequence
+ int n_threads = 1;
+ int w = 10, k = 15;
+ mm_idx_t *mi = mm_idx_build(refFileIn, w, k, n_threads);
+ if (!mi)
+ {
+ std::cerr << "[ariba_minimap] Error indexing" << std::endl;
+ return 1;
+ }
+
+ // mapping
+ mm_mapopt_t opt;
+ mm_mapopt_init(&opt); // initialize mapping parameters
+ mm_tbuf_t *tbuf1 = mm_tbuf_init(); // thread buffer; for multi-threading, allocate one tbuf for each thread
+ mm_tbuf_t *tbuf2 = mm_tbuf_init(); // thread buffer; for multi-threading, allocate one tbuf for each thread
+ while (kseq_read(ks1) >= 0) { // each kseq_read() call reads one query sequence
+ const mm_reg1_t *reg1, *reg2;
+ int j, n_reg1, n_reg2;
+ int ks2ok = kseq_read(ks2);
+ if (ks2ok == 0)
+ {
+ std::cerr << "Error getting mate of read. Cannot continue" << std::endl;
+ return 1;
+ }
+
+ // get all hits for the forward and reverse reads
+ reg1 = mm_map(mi, ks1->seq.l, ks1->seq.s, &n_reg1, tbuf1, &opt, 0);
+ reg2 = mm_map(mi, ks2->seq.l, ks2->seq.s, &n_reg2, tbuf2, &opt, 0);
+
+ if (n_reg1 > 0 || n_reg2 > 0)
+ {
+ std::map<std::string, MapPositionVector> positions1;
+ std::map<std::string, MapPositionVector> positions2;
+ std::set<std::string> refnames;
+
+ for (j =0; j < n_reg1; ++j)
+ {
+ const mm_reg1_t *r = ®1[j];
+ refnames.insert(mi->name[r->rid]);
+ refnameToScore[mi->name[r->rid]] += r->cnt;
+ uint32_t coord = r->rev ? std::max(r->rs, r->re) : std::min(r->rs, r->re);
+ positions1[mi->name[r->rid]].push_back(std::make_pair(coord, r->rev));
+ }
+ for (j =0; j < n_reg2; ++j)
+ {
+ const mm_reg1_t *r = ®2[j];
+ refnames.insert(mi->name[r->rid]);
+ refnameToScore[mi->name[r->rid]] += r->cnt;
+ uint32_t coord = r->rev ? std::max(r->rs, r->re) : std::min(r->rs, r->re);
+ positions2[mi->name[r->rid]].push_back(std::make_pair(coord, r->rev));
+ }
+
+ bool foundProperPair = false;
+ std::set<std::string> usedClusters;
+ for (std::set<std::string>::const_iterator iter = refnames.begin(); iter != refnames.end(); iter++)
+ {
+ std::string cluster = refnameToCluster[*iter];
+
+ // do not write a read pair to the same cluster more than once
+ if (usedClusters.find(cluster) != usedClusters.end())
+ {
+ continue;
+ }
+
+ usedClusters.insert(cluster);
+ readCounters[cluster]++;
+ ofs << cluster << '\t' << readCounters[cluster] << '\t' << ks1->seq.s << '\t' << ks1->qual.s << '\n';
+ readCounters[cluster]++;
+ ofs << cluster << '\t' << readCounters[cluster] << '\t' << ks2->seq.s << '\t' << ks2->qual.s << '\n';
+ baseCounters[cluster] += ks1->seq.l + ks2->seq.l;
+
+ // get insert size info, if reads mapped as proper pair
+ if (positions1.find(*iter) != positions1.end() && positions2.find(*iter) != positions2.end())
+ {
+ if (positions1[*iter].size() != 1 || positions2[*iter].size() != 1 || positions1[*iter][0].second == positions2[*iter][0].second)
+ {
+ continue;
+ }
+
+ uint32_t insertSize;
+
+ if (positions1[*iter][0].second && positions1[*iter][0].first > positions2[*iter][0].first)
+ {
+ insertSize = positions1[*iter][0].first - positions2[*iter][0].first + 1;
+ }
+ else if (positions2[*iter][0].second && positions2[*iter][0].first > positions1[*iter][0].first)
+ {
+ insertSize = positions2[*iter][0].first - positions1[*iter][0].first + 1;
+ }
+ else
+ {
+ continue;
+ }
+
+ insertHist[insertSize + 2*k]++;
+ foundProperPair = true;
+ }
+ }
+
+ if (foundProperPair)
+ {
+ properPairs++;
+ }
+ }
+ }
+ mm_tbuf_destroy(tbuf1);
+ mm_tbuf_destroy(tbuf2);
+
+ // deallocate index and close the query file
+ mm_idx_destroy(mi);
+ kseq_destroy(ks1);
+ kseq_destroy(ks2);
+ gzclose(infile1);
+ gzclose(infile2);
+ ofs.close();
+ chooseCluster(outprefix + ".cluster2representative", refnameToScore, refnameToCluster);
+ writeClusterCountsFile(outprefix + ".clusterCounts", readCounters, baseCounters);
+ writeInsertHistogramFile(outprefix + ".insertHistogram", insertHist);
+ writeProperPairsFile(outprefix + ".properPairs", properPairs);
+ return 0;
+}
+
+
+void loadClusters(std::string& filename, std::map<std::string, std::string>& refnameToCluster)
+{
+ std::ifstream ifs;
+ std::string line;
+ ifs.open(filename.c_str());
+ if (!ifs.good())
+ {
+ std::cerr << "Error opening clusters file '" << filename << "'. Cannot continue" << std::endl;
+ exit(1);
+ }
+
+ while(getline(ifs, line))
+ {
+ std::stringstream ss(line);
+ std::string cluster;
+ std::string seqname;
+ getline(ss, cluster, '\t');
+ if (cluster.size() == 0)
+ {
+ std::cerr << "Error reading clusters file at the following line\n" << line << std::endl;
+ exit(1);
+ }
+
+ while (getline(ss, seqname, '\t'))
+ {
+ refnameToCluster[seqname] = cluster;
+ }
+ }
+
+ ifs.close();
+}
+
+
+void chooseCluster(std::string outfile, std::map<std::string, uint64_t>& refnameToScore, std::map<std::string, std::string>& refnameToCluster)
+{
+ std::map<std::string, uint64_t> bestClusterScore;
+ std::map<std::string, std::string> bestCluster;
+ std::map<std::string, uint64_t>::iterator iter;
+ for (iter = refnameToScore.begin(); iter != refnameToScore.end(); iter++)
+ {
+ std::string cluster = refnameToCluster[iter->first];
+ if (bestClusterScore.find(cluster) == bestClusterScore.end() || bestClusterScore[cluster] < iter->second)
+ {
+ bestClusterScore[cluster] = iter->second;
+ bestCluster[cluster] = iter->first;
+ }
+ }
+
+ std::ofstream ofs;
+ ofs.open(outfile.c_str());
+ if (!ofs.good())
+ {
+ std::cerr << "Error opening output best cluster file '" << outfile << "'. Cannot continue" << std::endl;
+ exit(1);
+ }
+
+ for (iter = bestClusterScore.begin(); iter != bestClusterScore.end(); iter++)
+ {
+ ofs << iter->first << '\t' << bestCluster[iter->first] << '\n';
+ }
+
+ ofs.close();
+}
+
+
+void writeClusterCountsFile(std::string outfile, const std::map<std::string, uint64_t>& readCounters, const std::map<std::string, uint64_t>& baseCounters)
+{
+ std::ofstream ofs;
+ ofs.open(outfile.c_str());
+ if (!ofs.good())
+ {
+ std::cerr << "Error opening output cluster reads/bases counts file '" << outfile << "'. Cannot continue" << std::endl;
+ exit(1);
+ }
+
+ for (std::map<std::string, uint64_t>::const_iterator iter = readCounters.begin(); iter != readCounters.end(); iter++)
+ {
+ if (baseCounters.find(iter->first) == baseCounters.end())
+ {
+ std::cerr << "Error writing cluster counts file" << std::endl;
+ exit(1);
+ }
+ ofs << iter->first << '\t' << iter->second << '\t' << baseCounters.find(iter->first)->second << '\n';
+ }
+
+ ofs.close();
+}
+
+
+void writeInsertHistogramFile(std::string outfile, const std::map<uint32_t, uint32_t>& insertHist)
+{
+ std::ofstream ofs;
+ ofs.open(outfile.c_str());
+ if (!ofs.good())
+ {
+ std::cerr << "Error opening output insert histogram file '" << outfile << "'. Cannot continue" << std::endl;
+ exit(1);
+ }
+
+ for (std::map<uint32_t, uint32_t>::const_iterator iter = insertHist.begin(); iter != insertHist.end(); iter++)
+ {
+ ofs << iter->first << '\t' << iter->second << '\n';
+ }
+
+ ofs.close();
+}
+
+
+void writeProperPairsFile(std::string outfile, uint32_t properPairs)
+{
+ std::ofstream ofs;
+ ofs.open(outfile.c_str());
+ if (!ofs.good())
+ {
+ std::cerr << "Error opening output proper pairs count file '" << outfile << "'. Cannot continue" << std::endl;
+ exit(1);
+ }
+
+ ofs << properPairs << '\n';
+ ofs.close();
+}
diff --git a/ariba/external_progs.py b/ariba/external_progs.py
index 35fca54..b8b4661 100644
--- a/ariba/external_progs.py
+++ b/ariba/external_progs.py
@@ -13,12 +13,13 @@ prog_to_default = {
'bcftools': 'bcftools',
'bowtie2': 'bowtie2',
'cdhit': 'cd-hit-est',
- 'gapfiller': 'GapFiller.pl',
+ 'cdhit2d': 'cd-hit-est-2d',
+ #'gapfiller': 'GapFiller.pl',
+ 'mash': 'mash',
'nucmer' : 'nucmer',
'samtools': 'samtools',
- 'spades': 'spades.py',
- 'sspace': 'SSPACE_Basic_v2.0.pl',
- 'r': 'Rscript',
+ #'spades': 'spades.py',
+ #'sspace': 'SSPACE_Basic_v2.0.pl',
}
@@ -29,23 +30,25 @@ prog_to_version_cmd = {
'bcftools': ('', re.compile('^Version: ([0-9\.]+)')),
'bowtie2': ('--version', re.compile('.*bowtie2.*version (.*)$')),
'cdhit': ('', re.compile('CD-HIT version ([0-9\.]+) \(')),
- 'gapfiller': ('', re.compile('^Usage: .*pl \[GapFiller_(.*)\]')),
+ 'cdhit2d': ('', re.compile('CD-HIT version ([0-9\.]+) \(')),
+ #'gapfiller': ('', re.compile('^Usage: .*pl \[GapFiller_(.*)\]')),
+ 'mash': ('', re.compile('^Mash version (.*)$')),
'nucmer': ('--version', re.compile('^NUCmer \(NUCleotide MUMmer\) version ([0-9\.]+)')),
'samtools': ('', re.compile('^Version: ([0-9\.]+)')),
- 'spades': ('', re.compile('^SPAdes genome assembler v.?([0-9\.]+)')),
- 'sspace': ('', re.compile('^Usage: .*pl \[SSPACE_(.*)\]')),
- 'r': ('--version', re.compile('^R .*version ([0-9\.]+)')),
+ #'spades': ('', re.compile('^SPAdes genome assembler v\.?([0-9\.]+)')),
+ #'sspace': ('', re.compile('^Usage: .*pl \[SSPACE_(.*)\]')),
}
min_versions = {
'bcftools': '1.2',
'bowtie2': '2.1.0',
- 'cd-hit': '4.6',
+ 'cdhit': '4.6',
+ 'cdhit2d': '4.6',
+ 'mash': '1.0.2',
'nucmer': '3.1',
'samtools': '1.2',
- 'spades': '3.5.0',
- 'r': '2.14.0'
+ #'spades': '3.5.0',
}
diff --git a/ariba/flag.py b/ariba/flag.py
index dc580d5..201d4e7 100644
--- a/ariba/flag.py
+++ b/ariba/flag.py
@@ -11,7 +11,7 @@ flags_in_order = [
'assembly_fail',
'variants_suggest_collapsed_repeat',
'hit_both_strands',
- 'has_nonsynonymous_variants',
+ 'has_variant',
'ref_seq_choose_fail',
]
diff --git a/ariba/histogram.py b/ariba/histogram.py
index a77bdb8..8e5a142 100644
--- a/ariba/histogram.py
+++ b/ariba/histogram.py
@@ -9,16 +9,21 @@ class Histogram:
def __len__(self):
if len(self.bins) == 0:
return 0
-
+
return sum(list(self.bins.values()))
+
+ def __eq__(self, other):
+ return type(other) is type(self) and self.__dict__ == other.__dict__
+
+
def _to_bin(self, n):
return self.bin_width * (n // self.bin_width)
- def add(self, n):
+ def add(self, n, count=1):
b = self._to_bin(n)
- self.bins[b] = self.bins.get(b, 0) + 1
+ self.bins[b] = self.bins.get(b, 0) + count
def stats(self):
@@ -44,6 +49,6 @@ class Histogram:
if None not in [pc5, pc95, median]:
sspace_sd = round(max(pc95 - median, median - pc5) / median, 2)
-
+
return (pc5, median, pc95, sspace_sd)
diff --git a/ariba/mash.py b/ariba/mash.py
new file mode 100644
index 0000000..97a9496
--- /dev/null
+++ b/ariba/mash.py
@@ -0,0 +1,67 @@
+import sys
+import os
+from ariba import common, external_progs
+
+class Masher:
+ def __init__(self,
+ reference_fa,
+ query_fa,
+ log_fh=sys.stdout,
+ extern_progs=None,
+ ):
+ self.reference_fa = reference_fa
+ self.query_fa = query_fa
+ self.log_fh = log_fh
+
+ if extern_progs is None:
+ self.extern_progs = external_progs.ExternalProgs()
+ else:
+ self.extern_progs = extern_progs
+
+
+ def _sketch(self, infile, individual):
+ cmd_list = [
+ self.extern_progs.exe('mash'),
+ 'sketch',
+ '-s 100000'
+ ]
+
+ if individual:
+ cmd_list.append('-i')
+
+ cmd_list.append(infile)
+ common.syscall(' '.join(cmd_list), verbose=True, verbose_filehandle=self.log_fh)
+
+
+ def _dist(self, outfile):
+ cmd = ' '.join([
+ self.extern_progs.exe('mash'),
+ 'dist',
+ self.reference_fa + '.msh',
+ self.query_fa + '.msh',
+ '| sort -k3n >', outfile
+ ])
+ common.syscall(cmd, verbose=True, verbose_filehandle=self.log_fh)
+
+
+ def run(self, outfile):
+ self._sketch(self.reference_fa, True)
+ self._sketch(self.query_fa, False)
+ self._dist(outfile)
+ if os.path.getsize(outfile) == 0:
+ return None
+
+ try:
+ with open(outfile) as f:
+ line = f.readline().rstrip()
+ print('best mash match:\t', line, file=self.log_fh)
+ matching_hashes = int(line.split()[-1].split('/')[0])
+ if matching_hashes == 0:
+ best_seq = None
+ else:
+ best_seq = line.split()[0]
+ except:
+ best_seq = None
+
+ return best_seq
+
diff --git a/ariba/read_filter.py b/ariba/read_filter.py
new file mode 100644
index 0000000..27eaec3
--- /dev/null
+++ b/ariba/read_filter.py
@@ -0,0 +1,83 @@
+import os
+import tempfile
+import shutil
+
+from ariba import common, external_progs
+
+class Error (Exception): pass
+
+class ReadFilter:
+ def __init__(self,
+ readstore_obj,
+ references_fa,
+ cluster_name,
+ log_fh,
+ extern_progs=None,
+ ):
+ self.readstore = readstore_obj
+ self.references_fa = references_fa
+ self.cluster_name = cluster_name
+ self.log_fh = log_fh
+
+ if extern_progs is None:
+ self.extern_progs = external_progs.ExternalProgs()
+ else:
+ self.extern_progs = extern_progs
+
+
+ @staticmethod
+ def _run_cdhit_est_2d(reference, reads, outfile, cdhitest2d, verbose=False, verbose_fh=None):
+ cmd = ' '.join([
+ cdhitest2d,
+ '-i', reference,
+ '-i2', reads,
+ '-G 0 -M 0 -d 0 -aS 0.95',
+ '-o', outfile
+ ])
+ common.syscall(cmd, verbose=verbose, verbose_filehandle=verbose_fh)
+ os.unlink(outfile)
+
+
+ @staticmethod
+ def _cdhit_clstr_to_reads(infile):
+ reads = set()
+
+ with open(infile) as f:
+ for line in f:
+ if line.startswith('>') or line.endswith('*\n'):
+ continue
+
+ fields = line.split()
+ if not (fields[2].startswith('>') and fields[2].endswith('...')):
+ raise Error('Error parsing the following line of cd-hit-est-2d output from file "' + infile + '":\n' + line)
+
+ reads.add(int(fields[2][1:-5]))
+
+ return reads
+
+
+ def run(self, reads_out1, reads_out2):
+ tmpdir = tempfile.mkdtemp(prefix='tmp.filter_reads.', dir=os.getcwd())
+ all_reads_fasta = os.path.join(tmpdir, 'all_reads_for_cdhit.fa')
+ self.readstore.get_reads(self.cluster_name, all_reads_fasta, fasta=True, log_fh=self.log_fh)
+ cdhit_out = os.path.join(tmpdir, 'cdhit')
+ ReadFilter._run_cdhit_est_2d(
+ self.references_fa,
+ all_reads_fasta,
+ cdhit_out,
+ self.extern_progs.exe('cdhit2d'),
+ verbose=True,
+ verbose_fh=self.log_fh
+ )
+
+ wanted_read_ids = ReadFilter._cdhit_clstr_to_reads(cdhit_out + '.clstr')
+ total_reads, total_bases = self.readstore.get_reads(
+ self.cluster_name,
+ reads_out1,
+ out2=reads_out2,
+ log_fh=self.log_fh,
+ wanted_ids=wanted_read_ids
+ )
+
+ shutil.rmtree(tmpdir)
+ return total_reads, total_bases
diff --git a/ariba/read_store.py b/ariba/read_store.py
index d75bea8..954d633 100644
--- a/ariba/read_store.py
+++ b/ariba/read_store.py
@@ -35,26 +35,49 @@ class ReadStore:
pysam.tabix_index(infile + '.gz', seq_col=0, start_col=1, end_col=1)
- def get_reads(self, cluster_name, out1, out2, log_fh=None):
+ def get_reads(self, cluster_name, out1, out2=None, fasta=False, log_fh=None, wanted_ids=None):
+ total_reads = 0
+ total_bases = 0
+
if log_fh is not None:
print('Getting reads for', cluster_name, 'from', self.outfile, file=log_fh)
tabix_file = pysam.TabixFile(self.outfile)
f_out1 = pyfastaq.utils.open_file_write(out1)
- f_out2 = pyfastaq.utils.open_file_write(out2)
+ if out2 is None:
+ f_out2 = f_out1
+ else:
+ f_out2 = pyfastaq.utils.open_file_write(out2)
for line in tabix_file.fetch(reference=cluster_name):
cluster, number, seq, qual = line.rstrip().split()
number = int(number)
+ if wanted_ids is not None:
+ new_number = number if number % 2 else number - 1
+ if new_number not in wanted_ids:
+ continue
+
if number % 2 == 0:
- print('@' + str(number - 1) + '/2', seq, '+', qual, sep='\n', file=f_out2)
+ if fasta:
+ print('>' + str(number - 1) + '/2', seq, sep='\n', file=f_out2)
+ else:
+ print('@' + str(number - 1) + '/2', seq, '+', qual, sep='\n', file=f_out2)
else:
- print('@' + str(number) + '/1', seq, '+', qual, sep='\n', file=f_out1)
+ if fasta:
+ print('>' + str(number) + '/1', seq, sep='\n', file=f_out1)
+ else:
+ print('@' + str(number) + '/1', seq, '+', qual, sep='\n', file=f_out1)
+
+ total_reads += 1
+ total_bases += len(qual)
pyfastaq.utils.close(f_out1)
- pyfastaq.utils.close(f_out2)
+ if out2 is not None:
+ pyfastaq.utils.close(f_out2)
if log_fh is not None:
print('Finished getting reads for', cluster_name, 'from', self.outfile, file=log_fh)
+ return total_reads, total_bases
+
def clean(self):
os.unlink(self.outfile)
os.unlink(self.outfile + '.tbi')
diff --git a/ariba/ref_genes_getter.py b/ariba/ref_genes_getter.py
index 07f097b..bb8dfbe 100644
--- a/ariba/ref_genes_getter.py
+++ b/ariba/ref_genes_getter.py
@@ -49,8 +49,8 @@ class RefGenesGetter:
except:
raise Error('Error mkdir/chdir ' + tmpdir)
- card_version = '1.0.6'
- card_tarball_url = 'https://card.mcmaster.ca/download/0/broadsteet-v' + card_version + '.tar.gz'
+ card_version = '1.0.9'
+ card_tarball_url = 'https://card.mcmaster.ca/download/0/broadstreet-v' + card_version + '.tar.gz'
card_tarball = 'card.tar.gz'
print('Working in temporary directory', tmpdir)
print('Downloading data from card:', card_tarball_url, flush=True)
@@ -65,15 +65,11 @@ class RefGenesGetter:
print('Extracted json data file ', json_file,'. Reading its contents...', sep='')
- variant_metadata_tsv = outprefix + '.metadata.tsv'
- presence_absence_fa = outprefix + '.presence_absence.fa'
- variants_only_fa = outprefix + '.variants_only.fa'
- noncoding_fa = outprefix + '.noncoding.fa'
+ final_fasta = outprefix + '.fa'
+ final_tsv = outprefix + '.tsv'
log_file = outprefix + '.log'
- f_out_tsv = pyfastaq.utils.open_file_write(variant_metadata_tsv)
- f_out_presabs = pyfastaq.utils.open_file_write(presence_absence_fa)
- f_out_var_only = pyfastaq.utils.open_file_write(variants_only_fa)
- f_out_noncoding = pyfastaq.utils.open_file_write(noncoding_fa)
+ f_out_fa = pyfastaq.utils.open_file_write(final_fasta)
+ f_out_tsv = pyfastaq.utils.open_file_write(final_tsv)
f_out_log = pyfastaq.utils.open_file_write(log_file)
with open(json_file) as f:
@@ -102,7 +98,6 @@ class RefGenesGetter:
card_key
])
fasta = pyfastaq.sequences.Fasta(fasta_id, dna_seq)
- variant_type = 'p'
if gi != 'NA':
gene_tuple = fasta.make_into_gene()
@@ -118,40 +113,36 @@ class RefGenesGetter:
print('Translation of inferred gene dna sequence does not match protein sequence', fasta.id, sep='\t', file=f_out_log)
continue
+ print(fasta, file=f_out_fa)
+
if gi == 'NA':
- fasta_filehandle = f_out_noncoding
- variant_type = 'n'
+ gene_or_not = '0'
+ variant_only = '0'
elif len(data['snps']) == 0:
- fasta_filehandle = f_out_presabs
+ gene_or_not = '1'
+ variant_only = '0'
else:
- fasta_filehandle = f_out_var_only
+ gene_or_not = '1'
+ variant_only = '1'
- print(fasta.id, '.', '.', '.', data['ARO_name'], sep='\t', file=f_out_tsv)
+ print(fasta.id, gene_or_not, variant_only, '.', '.', data['ARO_name'], sep='\t', file=f_out_tsv)
- if len(data['snps']) == 0:
- print(fasta, file=fasta_filehandle)
- print(fasta.id, '.', '.', '.', data['ARO_description'], sep='\t', file=f_out_tsv)
+ if len(data['snps']) == 0 and data['ARO_description'] != '':
+ print(fasta.id, gene_or_not, variant_only, '.', '.', data['ARO_description'], sep='\t', file=f_out_tsv)
else:
- print(fasta, file=fasta_filehandle)
for snp in data['snps']:
- print(fasta.id, variant_type, snp, '.', data['ARO_description'], sep='\t', file=f_out_tsv)
+ if data['ARO_description'] != '':
+ print(fasta.id, gene_or_not, variant_only, snp, '.', data['ARO_description'], sep='\t', file=f_out_tsv)
+ pyfastaq.utils.close(f_out_fa)
pyfastaq.utils.close(f_out_tsv)
- pyfastaq.utils.close(f_out_presabs)
- pyfastaq.utils.close(f_out_var_only)
- pyfastaq.utils.close(f_out_noncoding)
pyfastaq.utils.close(f_out_log)
os.chdir(current_dir)
print('Extracted data and written ARIBA input files\n')
- print('Final genes files and metadata file:')
- print(' ', presence_absence_fa)
- print(' ', variants_only_fa)
- print(' ', variant_metadata_tsv)
-
- print('\nYou can use those files with ARIBA like this:')
- print('ariba prepareref --ref_prefix', outprefix, 'output_directory\n')
-
+ print('Finished. Final files are:', final_fasta, final_tsv, sep='\n\t', end='\n\n')
+ print('You can use them with ARIBA like this:')
+ print('ariba prepareref -f', final_fasta, '-m', final_tsv, 'output_directory\n')
print('If you use this downloaded data, please cite:')
print('"The Comprehensive Antibiotic Resistance Database", McArthur et al 2013, PMID: 23650175')
print('and in your methods say that version', card_version, 'of the database was used')
@@ -159,7 +150,8 @@ class RefGenesGetter:
def _get_from_resfinder(self, outprefix):
outprefix = os.path.abspath(outprefix)
- final_fasta = outprefix + '.presence_absence.fa'
+ final_fasta = outprefix + '.fa'
+ final_tsv = outprefix + '.tsv'
tmpdir = outprefix + '.tmp.download'
current_dir = os.getcwd()
@@ -176,7 +168,8 @@ class RefGenesGetter:
common.syscall('unzip ' + zipfile)
print('Combining downloaded fasta files...')
- f = pyfastaq.utils.open_file_write(final_fasta)
+ fout_fa = pyfastaq.utils.open_file_write(final_fasta)
+ fout_tsv = pyfastaq.utils.open_file_write(final_tsv)
for filename in os.listdir('database'):
if filename.endswith('.fsa'):
@@ -185,16 +178,17 @@ class RefGenesGetter:
file_reader = pyfastaq.sequences.file_reader(os.path.join('database', filename))
for seq in file_reader:
seq.id = prefix + '.' + seq.id
- print(seq, file=f)
+ print(seq, file=fout_fa)
+ print(seq.id, '1', '0', '.', '.', '.', sep='\t', file=fout_tsv)
- pyfastaq.utils.close(f)
-
- print('\nCombined files. Final genes file is called', final_fasta, end='\n\n')
+ pyfastaq.utils.close(fout_fa)
+ pyfastaq.utils.close(fout_tsv)
+ print('\nFinished combining files\n')
os.chdir(current_dir)
shutil.rmtree(tmpdir)
-
- print('You can use it with ARIBA like this:')
- print('ariba prepareref --ref_prefix', outprefix, 'output_directory\n')
+ print('Finished. Final files are:', final_fasta, final_tsv, sep='\n\t', end='\n\n')
+ print('You can use them with ARIBA like this:')
+ print('ariba prepareref -f', final_fasta, '-m', final_tsv, 'output_directory\n')
print('If you use this downloaded data, please cite:')
print('"Identification of acquired antimicrobial resistance genes", Zankari et al 2012, PMID: 22782487\n')
@@ -217,7 +211,7 @@ class RefGenesGetter:
print('Extracted files.')
genes_file = os.path.join(tmpdir, 'Database Nt Sequences File.txt')
- final_fasta = outprefix + '.presence_absence.fa'
+ final_fasta = outprefix + '.fa'
seq_reader = pyfastaq.sequences.file_reader(genes_file)
ids = {}
@@ -231,16 +225,25 @@ class RefGenesGetter:
pyfastaq.tasks.to_unique_by_id(genes_file, final_fasta)
shutil.rmtree(tmpdir)
- print('Finished. Final genes file is called', final_fasta, end='\n\n')
- print('You can use it with ARIBA like this:')
- print('ariba prepareref --ref_prefix', outprefix, 'output_directory\n')
+ final_tsv = outprefix + '.tsv'
+ f = pyfastaq.utils.open_file_write(final_tsv)
+ seq_reader = pyfastaq.sequences.file_reader(final_fasta)
+
+ for seq in seq_reader:
+ print(seq.id, '1', '0', '.', '.', '.', sep='\t', file=f)
+
+ pyfastaq.utils.close(f)
+
+ print('Finished. Final files are:', final_fasta, final_tsv, sep='\n\t', end='\n\n')
+ print('You can use them with ARIBA like this:')
+ print('ariba prepareref -f', final_fasta, '-m', final_tsv, 'output_directory\n')
print('If you use this downloaded data, please cite:')
print('"ARG-ANNOT, a new bioinformatic tool to discover antibiotic resistance genes in bacterial genomes",\nGupta et al 2014, PMID: 24145532\n')
+
def _get_from_vfdb(self, outprefix):
outprefix = os.path.abspath(outprefix)
tmpdir = outprefix + '.tmp.download'
- current_dir = os.getcwd()
try:
os.mkdir(tmpdir)
@@ -253,12 +256,12 @@ class RefGenesGetter:
vparser.run()
shutil.rmtree(tmpdir)
print('Extracted files.')
- final_fasta = outprefix + '.presence_absence.fa'
- final_tsv = outprefix + '.metadata.tsv'
+ final_fasta = outprefix + '.fa'
+ final_tsv = outprefix + '.tsv'
print('Extracted core DNA sequence dataset and metadata. Final files are:', final_fasta, final_tsv, sep='\n\t', end='\n\n')
- print('You can use it with ARIBA like this:')
- print('ariba prepareref --ref_prefix', outprefix, 'output_directory\n')
+ print('You can use them with ARIBA like this:')
+ print('ariba prepareref -f', final_fasta, '-m', final_tsv, 'output_directory\n')
print('If you use this downloaded data, please cite:')
print('"VFDB 2016: hierarchical and refined dataset for big data analysis-10 years on",\nChen LH et al 2016, Nucleic Acids Res. 44(Database issue):D694-D697. PMID: 26578559\n')
diff --git a/ariba/ref_preparer.py b/ariba/ref_preparer.py
index b4b4938..85ad525 100644
--- a/ariba/ref_preparer.py
+++ b/ariba/ref_preparer.py
@@ -1,20 +1,17 @@
import sys
import os
import pickle
-from ariba import common, mapping, reference_data
+from ariba import reference_data
class Error (Exception): pass
class RefPreparer:
def __init__(self,
+ fasta_files,
+ metadata_tsv_files,
extern_progs,
version_report_lines=None,
- ref_prefix=None,
- presabs=None,
- varonly=None,
- noncoding=None,
- metadata=None,
min_gene_length=6,
max_gene_length=10000,
genetic_code=11,
@@ -32,11 +29,8 @@ class RefPreparer:
else:
self.version_report_lines = version_report_lines
- self.ref_prefix = ref_prefix
- self.presabs = presabs
- self.varonly = varonly
- self.noncoding = noncoding
- self.metadata = metadata
+ self.fasta_files = fasta_files
+ self.metadata_tsv_files = metadata_tsv_files
self.min_gene_length = min_gene_length
self.max_gene_length = max_gene_length
self.genetic_code = genetic_code
@@ -48,60 +42,65 @@ class RefPreparer:
self.verbose = verbose
+ def _write_info_file(self, outfile):
+ with open(outfile, 'w') as fout:
+ for filename in self.fasta_files:
+ print('input fasta file:', filename, sep='\t', file=fout)
+
+ for filename in self.metadata_tsv_files:
+ print('input tsv file:', filename, sep='\t', file=fout)
+
+ print('genetic_code', self.genetic_code, sep='\t', file=fout)
+
+
@staticmethod
- def _get_ref_files(ref_prefix, presabs, varonly, noncoding, metadata, verbose=False):
- if {None} == {ref_prefix, presabs, varonly, noncoding}:
- raise Error('Error in RefPreparer._get_ref_files. All input files and ref_prefix were None. Cannot continue')
-
- filenames = {
- 'presabs': presabs,
- 'varonly': varonly,
- 'noncoding': noncoding,
- 'metadata': metadata,
- }
-
- file_suffixes = {
- 'presabs': 'presence_absence.fa',
- 'varonly': 'variants_only.fa',
- 'noncoding': 'noncoding.fa',
- 'metadata': 'metadata.tsv',
- }
-
- if verbose:
- print('\nLooking for input files ...')
-
- for key in file_suffixes:
- if ref_prefix is not None:
- filename = os.path.abspath(ref_prefix + '.' + file_suffixes[key])
-
- if os.path.exists(filename):
- if verbose:
- print('Found: ', filename, '.\n ...treating it as if this was used: --', key, ' ', filename, sep='')
- filenames[key] = filename
- else:
- if verbose:
- print('Not found:', filename)
- filenames[key] = None
- elif filenames[key] is not None:
- if os.path.exists(filenames[key]):
- filenames[key] = os.path.abspath(filenames[key])
- if verbose:
- print('Found: ', filenames[key], ' from option --', key, sep='')
+ def _rename_clusters(clusters_in):
+ new_clusters = {}
+ key_count = {}
+ min_prefix_length = 3
+
+ for old_name, name_set in sorted(clusters_in.items()):
+ names_before_dots = {}
+ for name in name_set:
+ if '.' in name:
+ prefix = name.split('.')[0]
+ if len(prefix) >= min_prefix_length:
+ names_before_dots[prefix] = names_before_dots.get(prefix, 0) + 1
+
+ if len(names_before_dots) == 0:
+ new_key = 'cluster'
+ elif len(names_before_dots) == 1:
+ new_key = list(names_before_dots.keys())[0]
+ if sum(list(names_before_dots.values())) < len(name_set):
+ new_key += '+'
+ else:
+ common_prefix = os.path.commonprefix(list(names_before_dots.keys()))
+ if common_prefix == '' or len(common_prefix) < min_prefix_length:
+ max_value = max(list(names_before_dots.values()))
+ possible_keys = [x for x in names_before_dots if names_before_dots[x] == max_value]
+ possible_keys.sort()
+ new_key = possible_keys[0] + '+'
else:
- raise Error('File not found! Cannot continue. Looked for: ' + filenames[key])
+ new_key = common_prefix + '-'
- if {None} == {filenames['presabs'], filenames['varonly'], filenames['noncoding']}:
- raise Error('Error in RefPreparer._get_ref_files. No FASTA files given! Cannot continue')
+ if new_key in key_count:
+ if new_key in new_clusters:
+ assert key_count[new_key] == 1
+ assert new_key + '_1' not in new_clusters
+ new_clusters[new_key + '_1'] = new_clusters[new_key]
+ del new_clusters[new_key]
- return filenames
+ key_count[new_key] += 1
+ new_name = new_key + '_' + str(key_count[new_key])
+ else:
+ key_count[new_key] = 1
+ new_name = new_key
+ assert new_name not in new_clusters
+ new_clusters[new_name] = name_set
- def _write_info_file(self, outfile):
- with open(outfile, 'w') as fout:
- for key in ('presabs', 'varonly', 'noncoding', 'metadata'):
- print('input_' + key, self.filenames[key], sep='\t', file=fout)
- print('genetic_code', self.genetic_code, sep='\t', file=fout)
+ return new_clusters
def run(self, outdir):
@@ -115,21 +114,18 @@ class RefPreparer:
except:
raise Error('Error making output directory ' + outdir + '. Cannot continue')
- with open(os.path.join(outdir, 'version_info.txt'), 'w') as f:
+ with open(os.path.join(outdir, '00.version_info.txt'), 'w') as f:
print('ARIBA run with this command:', file=f)
print(' '.join([sys.argv[0]] + ['prepareref'] + sys.argv[1:]), file=f)
print('from this directory:', original_dir, file=f)
print(file=f)
print(*self.version_report_lines, sep='\n', file=f)
- self.filenames = self._get_ref_files(self.ref_prefix, self.presabs, self.varonly, self.noncoding, self.metadata, self.verbose)
- self._write_info_file(os.path.join(outdir, 'info.txt'))
+ self._write_info_file(os.path.join(outdir, '00.info.txt'))
self.refdata = reference_data.ReferenceData(
- presence_absence_fa=self.filenames['presabs'],
- variants_only_fa=self.filenames['varonly'],
- non_coding_fa=self.filenames['noncoding'],
- metadata_tsv=self.filenames['metadata'],
+ self.fasta_files,
+ self.metadata_tsv_files,
min_gene_length=self.min_gene_length,
max_gene_length=self.max_gene_length,
genetic_code=self.genetic_code,
@@ -138,52 +134,31 @@ class RefPreparer:
if self.verbose:
print('\nLoading and checking input data', flush=True)
- refdata_outprefix = os.path.join(outdir, 'refcheck')
- self.refdata.rename_sequences(refdata_outprefix + '.rename_info')
- self.refdata.sanity_check(refdata_outprefix)
+ self.refdata.rename_sequences(os.path.join(outdir, '00.rename_info'))
+ self.refdata.sanity_check(os.path.join(outdir, '01.filter'))
if self.verbose:
print('\nRunning cdhit', flush=True)
- cdhit_outprefix = os.path.join(outdir, 'cdhit')
+ cdhit_outprefix = os.path.join(outdir, '02.cdhit')
clusters = self.refdata.cluster_with_cdhit(
- refdata_outprefix + '.01.check_variants',
cdhit_outprefix,
seq_identity_threshold=self.cdhit_min_id,
threads=self.threads,
length_diff_cutoff=self.cdhit_min_length,
nocluster=not self.run_cdhit,
verbose=self.verbose,
- cd_hit_est=self.extern_progs.exe('cdhit'),
clusters_file=self.clusters_file,
)
+ clusters = self._rename_clusters(clusters)
+ reference_data.ReferenceData.write_cluster_allocation_file(clusters, cdhit_outprefix + '.clusters.tsv')
+
if self.verbose:
print('\nWriting clusters to file.', len(clusters), 'in total', flush=True)
clusters_pickle_file = cdhit_outprefix + '.clusters.pickle'
+
with open(clusters_pickle_file, 'wb') as f:
pickle.dump(clusters, f)
- cluster_representatives_fa = cdhit_outprefix + '.cluster_representatives.fa'
-
- if self.verbose:
- print('\nRunning bowtie2-build on FASTA of cluster representatives')
-
- mapping.bowtie2_index(
- cluster_representatives_fa,
- cluster_representatives_fa,
- bowtie2=self.extern_progs.exe('bowtie2'),
- verbose=self.verbose,
- )
-
- if self.verbose:
- print('\nRunning samtools faidx on FASTA of cluster representatives')
-
- cmd = ' '.join([
- self.extern_progs.exe('samtools'),
- 'faidx',
- cluster_representatives_fa
- ])
-
- common.syscall(cmd, verbose=self.verbose)
diff --git a/ariba/refdata_query.py b/ariba/refdata_query.py
new file mode 100644
index 0000000..a3132a3
--- /dev/null
+++ b/ariba/refdata_query.py
@@ -0,0 +1,89 @@
+import os
+import pickle
+from ariba import reference_data
+
+
+class Error (Exception): pass
+
+class RefdataQuery:
+ def __init__(self,
+ prepareref_dir
+ ):
+ if not os.path.exists(prepareref_dir):
+ raise Error('Error querying refdata. Input directory "' + prepareref_dir + '" not found.')
+
+ self.prepareref_dir = prepareref_dir
+ self.refdata_fa = os.path.join(self.prepareref_dir, '02.cdhit.all.fa')
+ self.refdata_tsv = os.path.join(self.prepareref_dir, '01.filter.check_metadata.tsv')
+ self.clusters_pickle = os.path.join(self.prepareref_dir, '02.cdhit.clusters.pickle')
+
+
+ @staticmethod
+ def _load_clusters(pickle_file):
+ with open(pickle_file, 'rb') as f:
+ clusters = pickle.load(f)
+ return clusters
+
+
+ @staticmethod
+ def _seq2cluster(clusters, seqname):
+ for cluster in clusters:
+ if seqname in clusters[cluster]:
+ return cluster
+ return None
+
+
+ def _cluster2seqs(self, cluster_name):
+ clusters = self._load_clusters(self.clusters_pickle)
+ if cluster_name not in clusters:
+ return ['Cluster name "' + cluster_name + '" not found']
+ else:
+ return ['Sequences belonging to cluster ' + cluster_name + ':'] + sorted(list(clusters[cluster_name]))
+
+
+ def _seqinfo(self, seqname):
+ refdata = reference_data.ReferenceData([self.refdata_fa], [self.refdata_tsv])
+ if seqname not in refdata.sequences:
+ return ['Sequence "' + seqname + '" not found']
+
+ assert seqname in refdata.metadata
+
+ clusters = RefdataQuery._load_clusters(self.clusters_pickle)
+ cluster = RefdataQuery._seq2cluster(clusters, seqname)
+ assert cluster is not None
+
+ if refdata.metadata[seqname]['seq_type'] == 'p':
+ is_gene = '1'
+ var_dict = refdata.metadata[seqname]['p']
+ else:
+ is_gene = '0'
+ var_dict = refdata.metadata[seqname]['n']
+
+ description_lines = ['Description\t' + x.free_text for x in sorted(list(refdata.metadata[seqname]['.'])) if x.free_text != '.']
+
+ var_lines = []
+ for position in sorted(var_dict):
+ for seq_meta in sorted(var_dict[position]):
+ ident = '.' if seq_meta.variant.identifier is None else seq_meta.variant.identifier
+ var_lines.append('\t'.join(['Variant', str(seq_meta.variant), ident, seq_meta.free_text]))
+
+ return [
+ 'Name\t' + seqname,
+ 'Is gene\t' + is_gene,
+ 'Variant only\t' + ('1' if refdata.metadata[seqname]['variant_only'] else '0'),
+ 'Cluster\t' + cluster,
+ ] + description_lines + var_lines + ['Sequence\t' + refdata.sequences[seqname].seq]
+
+
+ def query(self, query_type, query_string):
+ queries = {
+ 'cluster': self._cluster2seqs,
+ 'seq': self._seqinfo,
+ }
+
+ if query_type not in queries:
+ raise Error('Unknown query type "' + query_type + '". Choices are:\n' + ','.join(sorted(queries.keys())) + '\n')
+
+ lines = queries[query_type](query_string)
+ print(*lines, sep='\n')
+
diff --git a/ariba/reference_data.py b/ariba/reference_data.py
index 3251a05..ed5ef8b 100644
--- a/ariba/reference_data.py
+++ b/ariba/reference_data.py
@@ -13,10 +13,8 @@ rename_sub_regex = re.compile(r'[^\w.-]')
class ReferenceData:
def __init__(self,
- presence_absence_fa=None,
- variants_only_fa=None,
- non_coding_fa=None,
- metadata_tsv=None,
+ fasta_files,
+ metadata_tsv_files,
min_gene_length=6,
max_gene_length=10000,
genetic_code=11,
@@ -26,58 +24,20 @@ class ReferenceData:
self.min_gene_length = min_gene_length
self.max_gene_length = max_gene_length
- total_ref_seqs_loaded = 0
+ self.sequences, self.metadata = ReferenceData._load_input_files_and_check_seq_names(fasta_files, metadata_tsv_files)
+ if len(self.sequences) == 0:
+ raise Error('Error. No sequences found in input file(s):' + '\n'.join(fasta_files) + '\nCannot continue')
- for x in ['presence_absence', 'variants_only', 'non_coding']:
- exec('self.seq_filenames[x] = self._get_filename(' + x + '_fa)')
- self.seq_dicts[x] = self._load_fasta_file(self.seq_filenames[x])
- total_ref_seqs_loaded += len(self.seq_dicts[x])
-
- if {None} == set(self.seq_filenames.values()):
- raise Error('Error! Must supply at least one of presence_absence_fa, variants_only_fa, non_coding_fa. Cannot continue')
-
- if total_ref_seqs_loaded == 0:
- raise Error('Error! No sequences found in input file(s). Maybe they were empty? Cannot continue.')
-
- self.metadata = self._load_metadata_tsv(metadata_tsv)
self.genetic_code = genetic_code
pyfastaq.sequences.genetic_code = self.genetic_code
- common_names = self._dict_keys_intersection(list(self.seq_dicts.values()))
- if len(common_names):
- raise Error('Error! Non-unique names found in input fasta files:\n' + '\n'.join(common_names))
-
-
- @staticmethod
- def _dict_keys_intersection(dicts):
- dicts = [x for x in dicts if x is not None]
- if len(dicts) == 0:
- return set()
-
- inter = set(dicts[0].keys())
-
- for d in dicts[1:]:
- inter = inter.intersection(set(d.keys()))
- return inter
- @staticmethod
- def _get_filename(filename):
- if filename is None:
- return None
- else:
- if os.path.exists(filename):
- return os.path.abspath(filename)
- else:
- raise Error('Error! File not found: ' + filename)
-
-
- @staticmethod
- def _load_metadata_tsv(filename):
+ @classmethod
+ def _load_metadata_tsv(cls, filename, metadata_dict):
if filename is None:
return {}
f = pyfastaq.utils.open_file_read(filename)
- metadata_dict = {}
for line in f:
try:
@@ -87,48 +47,81 @@ class ReferenceData:
continue
if metadata.name not in metadata_dict:
- metadata_dict[metadata.name] = {'n': {}, 'p': {}, '.': set()}
-
- if metadata.variant_type == '.':
+ metadata_dict[metadata.name] = {
+ 'seq_type': metadata.seq_type,
+ 'variant_only': metadata.variant_only,
+ 'n': {},
+ 'p': {},
+ '.': set()
+ }
+ elif metadata.seq_type != metadata_dict[metadata.name]['seq_type'] or metadata.variant_only != metadata_dict[metadata.name]['variant_only']:
+ raise Error('Inconsistent metadata for sequence ' + metadata.name + '. Cannot continue')
+
+ if metadata.variant is None:
metadata_dict[metadata.name]['.'].add(metadata)
else:
- if metadata.variant.position not in metadata_dict[metadata.name][metadata.variant_type]:
- metadata_dict[metadata.name][metadata.variant_type][metadata.variant.position] = set()
+ if metadata.variant.position not in metadata_dict[metadata.name][metadata.seq_type]:
+ metadata_dict[metadata.name][metadata.seq_type][metadata.variant.position] = set()
- metadata_dict[metadata.name][metadata.variant_type][metadata.variant.position].add(metadata)
+ metadata_dict[metadata.name][metadata.seq_type][metadata.variant.position].add(metadata)
pyfastaq.utils.close(f)
return metadata_dict
- @staticmethod
- def _load_fasta_file(filename):
- d = {}
+ @classmethod
+ def _load_all_metadata_tsvs(cls, filenames):
+ metadata_dict = {}
+ assert len(filenames) > 0
+ for filename in filenames:
+ ReferenceData._load_metadata_tsv(filename, metadata_dict)
+ return metadata_dict
+
+ @classmethod
+ def _load_fasta_file(cls, filename, seq_dict):
if filename is not None:
seq_reader = pyfastaq.sequences.file_reader(filename)
for seq in seq_reader:
- #seq.id = seq.id.split()[0]
- if seq.id in d:
+ if seq.id in seq_dict:
raise Error('Duplicate name "' + seq.id + '" found in file ' + filename + '. Cannot continue)')
- d[seq.id] = copy.copy(seq)
+ seq_dict[seq.id] = copy.copy(seq)
+
+
+ @classmethod
+ def _load_all_fasta_files(cls, filenames):
+ seq_dict = {}
+ assert len(filenames) > 0
+ for filename in filenames:
+ ReferenceData._load_fasta_file(filename, seq_dict)
+ return seq_dict
- return d
@staticmethod
- def _find_gene_in_seqs(name, dicts):
- for dict_name, this_dict in dicts.items():
- if this_dict is None:
- continue
- elif name in this_dict:
- return dict_name
+ def _load_input_files_and_check_seq_names(fasta_files, metadata_files):
+ metadata = ReferenceData._load_all_metadata_tsvs(metadata_files)
+ all_seqs = ReferenceData._load_all_fasta_files(fasta_files)
- return None
+ for seq_name in all_seqs:
+ if seq_name not in metadata:
+ raise Error('Sequence "' + seq_name + '" found in input fasta file but not in metadata file. Cannot continue')
+ to_remove = set()
- @staticmethod
- def _write_metadata_tsv(metadata, filename):
+ for seq_name in metadata:
+ if seq_name not in all_seqs:
+ to_remove.add(seq_name)
+ print('WARNING: sequence "', seq_name, '" found in metadata, but not in fasta file. Ignoring it.', sep='', file=sys.stderr)
+
+ for key in to_remove:
+ del metadata[key]
+
+ return all_seqs, metadata
+
+
+ @classmethod
+ def _write_metadata_tsv(cls, metadata, filename):
f = pyfastaq.utils.open_file_write(filename)
for gene_name, data_dict in sorted(metadata.items()):
@@ -149,64 +142,57 @@ class ReferenceData:
pyfastaq.utils.close(f)
- @staticmethod
- def _write_dict_of_sequences(seq_dict, filename):
- f = pyfastaq.utils.open_file_write(filename)
- for seq in sorted(seq_dict):
- print(seq_dict[seq], file=f)
- pyfastaq.utils.close(f)
+ @classmethod
+ def _write_sequences_to_files(cls, sequences, metadata, outprefix):
+ filenames = {
+ ('n', False): outprefix + '.noncoding.fa',
+ ('n', True): outprefix + '.noncoding.varonly.fa',
+ ('p', False): outprefix + '.gene.fa',
+ ('p', True): outprefix + '.gene.varonly.fa',
+ }
+ filename2filehandle = {}
+ for key in filenames:
+ filename2filehandle[filenames[key]] = pyfastaq.utils.open_file_write(filenames[key])
- def _write_sequences(self, filename, sequences_to_write):
- assert sequences_to_write in self.seq_dicts and sequences_to_write in self.seq_filenames
- if self.seq_filenames[sequences_to_write] is not None:
- self._write_dict_of_sequences(self.seq_dicts[sequences_to_write], filename)
+ all_fh = pyfastaq.utils.open_file_write(outprefix + '.all.fa')
+ for sequence in sorted(sequences):
+ key = metadata[sequence]['seq_type'], metadata[sequence]['variant_only']
+ filehandle = filename2filehandle[filenames[key]]
+ print(sequences[sequence], file=filehandle)
+ print(sequences[sequence], file=all_fh)
- def _filter_bad_variant_data(self, out_prefix, presence_absence_removed, variants_only_removed):
- genes_to_remove = set()
- variants_only_genes_not_found = set(self.seq_dicts['variants_only'].keys())
- log_file = out_prefix + '.log'
- tsv_file = out_prefix + '.tsv'
- log_fh = pyfastaq.utils.open_file_write(log_file)
-
- for gene_name, metadata_dict in sorted(self.metadata.items()):
- if gene_name in presence_absence_removed:
- print(gene_name, 'was removed from presence/absence fasta, so removing its metadata', file=log_fh)
- genes_to_remove.add(gene_name)
- continue
- elif gene_name in variants_only_removed:
- print(gene_name, 'was removed from variants only fasta, so removing its metadata', file=log_fh)
- genes_to_remove.add(gene_name)
- continue
+ for filehandle in filename2filehandle.values():
+ pyfastaq.utils.close(filehandle)
- gene_in_seq_dict = self._find_gene_in_seqs(gene_name, self.seq_dicts)
- if gene_in_seq_dict is None:
- print(gene_name, 'is in input tsv file, but not found in any input sequence files. Removing', file=log_fh)
- genes_to_remove.add(gene_name)
- continue
+ pyfastaq.utils.close(all_fh)
- # take out any metadata that is not a variant and has no extra info.
- to_remove = []
- for metadata in metadata_dict['.']:
- if metadata.free_text == '.':
- print(gene_name, 'metadata has no info. Just gene name given. Removing. Line of file was:', metadata, file=log_fh)
- to_remove.append(metadata)
+ @classmethod
+ def _filter_bad_variant_data(cls, sequences, all_metadata, out_prefix, removed_sequences):
+ genes_to_remove = set()
+ variants_only_genes_found_variant = set()
+ log_file = out_prefix + '.check_metadata.log'
+ tsv_file = out_prefix + '.check_metadata.tsv'
+ log_fh = pyfastaq.utils.open_file_write(log_file)
- for metadata in to_remove:
- metadata_dict['.'].remove(metadata)
+ for sequence_name, metadata_dict in sorted(all_metadata.items()):
+ if sequence_name in removed_sequences:
+ print(sequence_name, 'was removed because does not look like a gene, so removing its metadata', file=log_fh)
+ del all_metadata[sequence_name]
+ continue
+ assert sequence_name in sequences
# if this is non_coding, we shouldn't have any amino acid variants
- if gene_in_seq_dict == 'non_coding':
+ if metadata_dict['seq_type'] != 'p':
for position in metadata_dict['p']:
for metadata in metadata_dict['p'][position]:
- print(gene_name, 'variant of type "p" for protein, but sequence is non-coding. Removing. Line of file was:', metadata, file=log_fh)
+ print(sequence_name, 'variant is an amino acid change, but sequence is non-coding. Removing. Line of file was:', metadata, file=log_fh)
metadata_dict['p'] = {}
-
# take out variant metadata that doesn't make sense (eg bases not matching ref sequence)
for variant_type in ['n', 'p']:
positions_to_remove = []
@@ -215,13 +201,13 @@ class ReferenceData:
for metadata in metadata_dict[variant_type][position]:
to_translate = variant_type == 'p'
- if not metadata.variant.sanity_check_against_seq(self.seq_dicts[gene_in_seq_dict][gene_name], translate_seq=to_translate):
- print(gene_name, 'variant does not match reference. Removing. Line of file was:', metadata, file=log_fh)
+ if not metadata.variant.sanity_check_against_seq(sequences[sequence_name], translate_seq=to_translate):
+ print(sequence_name, 'variant does not match reference. Removing. Line of file was:', metadata, file=log_fh)
meta_to_remove.append(metadata)
continue
- if gene_in_seq_dict == 'variants_only':
- variants_only_genes_not_found.discard(gene_name)
+ if metadata_dict['variant_only']:
+ variants_only_genes_found_variant.add(sequence_name)
for metadata in meta_to_remove:
metadata_dict[variant_type][position].remove(metadata)
@@ -231,27 +217,20 @@ class ReferenceData:
for position in positions_to_remove:
del metadata_dict[variant_type][position]
+ if metadata_dict['variant_only'] and len(metadata_dict['n']) == len(metadata_dict['p']) == len(metadata_dict['.']) == 0:
+ print(sequence_name, 'No remaining data after checks. Removing this sequence because it is variants only', file=log_fh)
+ genes_to_remove.add(sequence_name)
- if gene_in_seq_dict == 'variants_only' and len(metadata_dict['n']) == len(metadata_dict['p']) == len(metadata_dict['.']) == 0:
- print(gene_name, 'No remaining data after checks. Removing this sequence because it is in the variants only file', file=log_fh)
- genes_to_remove.add(gene_name)
-
- for gene_name in genes_to_remove:
- self.metadata.pop(gene_name)
-
- for gene_name in variants_only_genes_not_found:
- print(gene_name, 'is in variants only gene file, but no variants found. Removing.', file=log_fh)
- self.seq_dicts['variants_only'].pop(gene_name)
+ for sequence_name in genes_to_remove:
+ del all_metadata[sequence_name]
+ del sequences[sequence_name]
pyfastaq.utils.close(log_fh)
- self._write_metadata_tsv(self.metadata, tsv_file)
- self._write_sequences(out_prefix + '.presence_absence.fa', 'presence_absence')
- self._write_sequences(out_prefix + '.non_coding.fa', 'non_coding')
- self._write_sequences(out_prefix + '.variants_only.fa', 'variants_only')
+ ReferenceData._write_metadata_tsv(all_metadata, tsv_file)
- @staticmethod
- def _try_to_get_gene_seq(seq, min_length, max_length):
+ @classmethod
+ def _try_to_get_gene_seq(cls, seq, min_length, max_length):
seq.seq = seq.seq.upper()
if len(seq) < min_length:
return None, 'Remove: too short. Length: ' + str(len(seq))
@@ -265,20 +244,24 @@ class ReferenceData:
return got[0], 'Made ' + seq.id + ' into gene. strand=' + got[1] + ', frame=' + str(got[2])
- def _remove_bad_genes(self, seqs_dict, log_file):
+ @classmethod
+ def _remove_bad_genes(cls, sequences, metadata, log_file, min_gene_length, max_gene_length):
to_remove = set()
- if len(seqs_dict) == 0:
+ if len(sequences) == 0:
return to_remove
log_fh = pyfastaq.utils.open_file_write(log_file)
- for name in sorted(seqs_dict):
- new_seq, message = self._try_to_get_gene_seq(seqs_dict[name], self.min_gene_length, self.max_gene_length)
+ for name in sorted(sequences):
+ if metadata[name]['seq_type'] != 'p':
+ continue
+
+ new_seq, message = ReferenceData._try_to_get_gene_seq(sequences[name], min_gene_length, max_gene_length)
if new_seq is None:
to_remove.add(name)
else:
- seqs_dict[name] = new_seq
+ sequences[name] = new_seq
if message is not None:
print(name, message, file=log_fh)
@@ -286,15 +269,14 @@ class ReferenceData:
pyfastaq.utils.close(log_fh)
for name in to_remove:
- seqs_dict.pop(name)
+ sequences.pop(name)
return to_remove
def sanity_check(self, outprefix):
- variants_only_removed = self._remove_bad_genes(self.seq_dicts['variants_only'], outprefix + '.00.check_fasta_variants_only.log')
- presence_absence_removed = self._remove_bad_genes(self.seq_dicts['presence_absence'], outprefix + '.00.check_fasta_presence_absence.log')
- self._filter_bad_variant_data(outprefix + '.01.check_variants', presence_absence_removed, variants_only_removed)
+ removed_seqs = self._remove_bad_genes(self.sequences, self.metadata, outprefix + '.check_genes.log', self.min_gene_length, self.max_gene_length)
+ ReferenceData._filter_bad_variant_data(self.sequences, self.metadata, outprefix, removed_seqs)
@classmethod
@@ -327,18 +309,14 @@ class ReferenceData:
@classmethod
- def _rename_names_in_seq_dicts(cls, seq_dicts, rename_dict):
- '''Changes seq_dicts in place'''
- for seq_type in ['presence_absence', 'variants_only', 'non_coding']:
- new_dict = {}
- while len(seq_dicts[seq_type]):
- old_name, seq = seq_dicts[seq_type].popitem()
- if old_name in rename_dict:
- seq.id = rename_dict[old_name]
-
- new_dict[seq.id] = seq
- seq_dicts[seq_type] = new_dict
+ def _rename_names_in_seq_dict(cls, seq_dict, rename_dict):
+ new_dict = {}
+ for name, seq in seq_dict.items():
+ if name in rename_dict:
+ seq.id = rename_dict[name]
+ new_dict[seq.id] = seq
+ return new_dict
@classmethod
def _rename_metadata_set(cls, metadata_set, new_name):
@@ -372,54 +350,24 @@ class ReferenceData:
def rename_sequences(self, outfile):
- presabs_names = set(self.seq_dicts['presence_absence'].keys())
- noncoding_names = set(self.seq_dicts['non_coding'].keys())
- varonly_names = set(self.seq_dicts['variants_only'].keys())
- # we should have already checked that all the names are unique, but let's do it again!
- all_names = presabs_names.union(noncoding_names).union(varonly_names)
- if len(all_names) != len(presabs_names) + len(noncoding_names) + len(varonly_names):
- raise Error('Got a non-unique name in input data. Cannot continue')
-
- rename_dict = ReferenceData._seq_names_to_rename_dict(all_names)
+ rename_dict = ReferenceData._seq_names_to_rename_dict(self.sequences.keys())
if len(rename_dict):
print('Had to rename some sequences. See', outfile, 'for old -> new names', file=sys.stderr)
with open(outfile, 'w') as f:
for old_name, new_name in sorted(rename_dict.items()):
print(old_name, new_name, sep='\t', file=f)
- ReferenceData._rename_names_in_seq_dicts(self.seq_dicts, rename_dict)
+ self.sequences = ReferenceData._rename_names_in_seq_dict(self.sequences, rename_dict)
self.metadata = ReferenceData._rename_names_in_metadata(self.metadata, rename_dict)
- def make_catted_fasta(self, outfile):
- f = pyfastaq.utils.open_file_write(outfile)
-
- for key in ['presence_absence', 'variants_only', 'non_coding']:
- filename = self.seq_filenames[key]
- if filename is not None:
- file_reader = pyfastaq.sequences.file_reader(filename)
- for seq in file_reader:
- print(seq, file=f)
-
- pyfastaq.utils.close(f)
-
-
def sequence_type(self, sequence_name):
- return self._find_gene_in_seqs(sequence_name, self.seq_dicts)
+ assert sequence_name in self.metadata
+ return self.metadata[sequence_name]['seq_type'], self.metadata[sequence_name]['variant_only']
def sequence(self, sequence_name):
- d = self._find_gene_in_seqs(sequence_name, self.seq_dicts)
- if d is None:
- return None
- else:
- return self.seq_dicts[d][sequence_name]
-
-
- def sequence_length(self, sequence_name):
- seq = self.sequence(sequence_name)
- assert seq is not None
- return len(seq)
+ return self.sequences.get(sequence_name, None)
def all_non_wild_type_variants(self, ref_name):
@@ -444,59 +392,46 @@ class ReferenceData:
def write_cluster_allocation_file(clusters, outfile):
f_out = pyfastaq.utils.open_file_write(outfile)
- for seq_type in ['presence_absence', 'variants_only', 'non_coding']:
- if clusters[seq_type] is None:
- continue
-
- for seq_name in sorted(clusters[seq_type]):
- other_seqs = clusters[seq_type][seq_name].difference({seq_name})
- if len(other_seqs) > 0:
- other_seq_string = '\t'.join(sorted(list(other_seqs)))
- print(seq_name, other_seq_string, sep='\t', file=f_out)
- else:
- print(seq_name, file=f_out)
+ for cluster, name_set in sorted(clusters.items()):
+ seq_names = sorted(list(name_set))
+ print(cluster, *seq_names, sep='\t', file=f_out)
pyfastaq.utils.close(f_out)
- def cluster_with_cdhit(self, inprefix, outprefix, seq_identity_threshold=0.9, threads=1, length_diff_cutoff=0.9, nocluster=False, verbose=False, cd_hit_est='cd-hit-est', clusters_file=None):
- files_to_cat = []
+ def cluster_with_cdhit(self, outprefix, seq_identity_threshold=0.9, threads=1, length_diff_cutoff=0.9, nocluster=False, verbose=False, clusters_file=None):
clusters = {}
+ ReferenceData._write_sequences_to_files(self.sequences, self.metadata, outprefix)
+ ref_types = ('noncoding', 'noncoding.varonly', 'gene', 'gene.varonly')
- for seqs_type in ['presence_absence', 'variants_only', 'non_coding']:
- if len(self.seq_dicts[seqs_type]) > 0:
- outfile = outprefix + '.' + seqs_type + '.cdhit'
- files_to_cat.append(outfile)
- cdhit_runner = cdhit.Runner(
- inprefix + '.' + seqs_type + '.fa',
- outfile,
- seq_identity_threshold=seq_identity_threshold,
- threads=threads,
- length_diff_cutoff=length_diff_cutoff,
- verbose=verbose,
- cd_hit_est=cd_hit_est,
- rename_suffix = seqs_type[0]
- )
-
- if clusters_file is not None:
- new_clusters = cdhit_runner.run_get_clusters_from_file(clusters_file)
- elif nocluster:
- new_clusters = cdhit_runner.fake_run()
- else:
- new_clusters = cdhit_runner.run()
-
- clusters[seqs_type] = new_clusters
- else:
- clusters[seqs_type] = None
+ for ref_type in ref_types:
+ ref_file = outprefix + '.' + ref_type + '.fa'
+ if os.path.getsize(ref_file) == 0:
+ continue
- assert len(files_to_cat) > 0
- f_out = pyfastaq.utils.open_file_write(outprefix + '.cluster_representatives.fa')
+ if len(clusters) == 0:
+ min_cluster_number = 0
+ else:
+ min_cluster_number = 1 + max([int(x) for x in clusters.keys()])
+
+ cdhit_runner = cdhit.Runner(
+ ref_file,
+ seq_identity_threshold=seq_identity_threshold,
+ threads=threads,
+ length_diff_cutoff=length_diff_cutoff,
+ verbose=verbose,
+ min_cluster_number = min_cluster_number,
+ )
+
+ if clusters_file is not None:
+ new_clusters = cdhit_runner.run_get_clusters_from_file(clusters_file)
+ elif nocluster:
+ new_clusters = cdhit_runner.fake_run()
+ else:
+ new_clusters = cdhit_runner.run()
- for filename in files_to_cat:
- for seq in pyfastaq.sequences.file_reader(filename):
- print(seq, file=f_out)
+ clusters.update(new_clusters)
- pyfastaq.utils.close(f_out)
self.write_cluster_allocation_file(clusters, outprefix + '.clusters.tsv')
return clusters
diff --git a/ariba/report.py b/ariba/report.py
index f32234e..cc7ce3e 100644
--- a/ariba/report.py
+++ b/ariba/report.py
@@ -5,34 +5,35 @@ class Error (Exception): pass
columns = [
'ref_name', # 0 name of reference sequence
- 'ref_type', # 1 type of reference sequence (presence/absence, variants only, noncoding)
- 'flag', # 2 cluster flag
- 'reads', # 3 number of reads in this cluster
- 'cluster', # 4 name of cluster
- 'ref_len', # 5 length of reference sequence
- 'ref_base_assembled', # 6 number of reference nucleotides assembled by this contig
- 'pc_ident', # 7 %identity between ref sequence and contig
- 'ctg', # 8 name of contig matching reference
- 'ctg_len', # 9 length of contig matching reference
- 'ctg_cov', # 10 mean mapped read depth of this contig
- 'known_var', # 11 is this a known SNP from reference metadata? 1|0
- 'var_type', # 12 The type of variant. Currently only SNP supported
- 'var_seq_type', # 13 if known_var=1, n|p for nucleotide or protein
- 'known_var_change', # 14 if known_var=1, the wild/variant change, eg I42L
- 'has_known_var', # 15 if known_var=1, 1|0 for whether or not the assembly has the variant
- 'ref_ctg_change', # 16 amino acid or nucleotide change between reference and contig, eg I42L
- 'ref_ctg_effect', # 17 effect of change between reference and contig, eg SYS, NONSYN (amino acid changes only)
- 'ref_start', # 18 start position of variant in contig
- 'ref_end', # 19 end position of variant in contig
- 'ref_nt', # 20 nucleotide(s) in contig at variant position
- 'ctg_start', # 21 start position of variant in contig
- 'ctg_end', # 22 end position of variant in contig
- 'ctg_nt', # 23 nucleotide(s) in contig at variant position
- 'smtls_total_depth', # 24 total read depth at variant start position in contig, reported by mpileup
- 'smtls_alt_nt', # 25 alt nucleotides on contig, reported by mpileup
- 'smtls_alt_depth', # 26 alt depth on contig, reported by mpileup
- 'var_description', # 27 description of variant from reference metdata
- 'free_text', # 28 other free text about reference sequence, from reference metadata
+ 'gene', # 1 is a gene 0|1
+ 'var_only', # 2 is variant only 0|1
+ 'flag', # 3 cluster flag
+ 'reads', # 4 number of reads in this cluster
+ 'cluster', # 5 name of cluster
+ 'ref_len', # 6 length of reference sequence
+ 'ref_base_assembled', # 7 number of reference nucleotides assembled by this contig
+ 'pc_ident', # 8 %identity between ref sequence and contig
+ 'ctg', # 9 name of contig matching reference
+ 'ctg_len', # 10 length of contig matching reference
+ 'ctg_cov', # 11 mean mapped read depth of this contig
+ 'known_var', # 12 is this a known SNP from reference metadata? 1|0
+ 'var_type', # 13 The type of variant. Currently only SNP supported
+ 'var_seq_type', # 14 if known_var=1, n|p for nucleotide or protein
+ 'known_var_change', # 15 if known_var=1, the wild/variant change, eg I42L
+ 'has_known_var', # 16 if known_var=1, 1|0 for whether or not the assembly has the variant
+ 'ref_ctg_change', # 17 amino acid or nucleotide change between reference and contig, eg I42L
+ 'ref_ctg_effect', # 18 effect of change between reference and contig, eg SYS, NONSYN (amino acid changes only)
+ 'ref_start', # 19 start position of variant in contig
+ 'ref_end', # 20 end position of variant in contig
+ 'ref_nt', # 21 nucleotide(s) in contig at variant position
+ 'ctg_start', # 22 start position of variant in contig
+ 'ctg_end', # 23 end position of variant in contig
+ 'ctg_nt', # 24 nucleotide(s) in contig at variant position
+ 'smtls_total_depth', # 25 total read depth at variant start position in contig, reported by mpileup
+ 'smtls_alt_nt', # 26 alt nucleotides on contig, reported by mpileup
+ 'smtls_alt_depth', # 27 alt depth on contig, reported by mpileup
+ 'var_description', # 28 description of variant from reference metdata
+ 'free_text', # 29 other free text about reference sequence, from reference metadata
]
@@ -135,15 +136,23 @@ def _report_lines_for_one_contig(cluster, contig_name, ref_cov_per_contig, pymum
lines = []
contig_length = len(cluster.assembly.sequences[contig_name])
assert contig_length != 0
+ if contig_name in ref_cov_per_contig:
+ if contig_name == cluster.assembly_compare.scaff_name_matching_ref:
+ ref_cov = len(cluster.ref_sequence)
+ else:
+ ref_cov = ref_cov_per_contig[contig_name]
+ else:
+ ref_cov = 0
common_first_columns = [
cluster.ref_sequence.id,
- cluster.ref_sequence_type,
+ cluster.is_gene,
+ cluster.is_variant_only,
str(cluster.status_flag),
str(cluster.total_reads),
cluster.name,
str(len(cluster.ref_sequence)),
- str(ref_cov_per_contig[contig_name]) if contig_name in ref_cov_per_contig else '0', # 6 ref bases assembled
+ str(ref_cov),
str(cluster.assembly_compare.percent_identities[contig_name]) if contig_name in cluster.assembly_compare.percent_identities else '0',
contig_name,
str(contig_length), # 9 length of scaffold matching reference
@@ -238,10 +247,13 @@ def _report_lines_for_one_contig(cluster, contig_name, ref_cov_per_contig, pymum
def report_lines(cluster):
if cluster.status_flag.has('ref_seq_choose_fail'):
- return ['\t'.join(['.', '.', str(cluster.status_flag), str(cluster.total_reads), cluster.name] + ['.'] * (len(columns) - 5))]
+ fields = ['.', '.', '.', str(cluster.status_flag), str(cluster.total_reads), cluster.name] + ['.'] * (len(columns) - 6)
+ assert len(fields) == len(columns)
+ return ['\t'.join(fields)]
elif cluster.status_flag.has('assembly_fail'):
- return ['\t'.join([cluster.ref_sequence.id, cluster.ref_sequence_type, str(cluster.status_flag), str(cluster.total_reads), cluster.name] + ['.'] * (len(columns) - 5))]
-
+ fields = ['.', '.', '.', str(cluster.status_flag), str(cluster.total_reads), cluster.name] + ['.'] * (len(columns) - 6)
+ assert len(fields) == len(columns)
+ return ['\t'.join(fields)]
ref_cov_per_contig = cluster.assembly_compare.ref_cov_per_contig(cluster.assembly_compare.nucmer_hits)
lines = []
diff --git a/ariba/report_filter.py b/ariba/report_filter.py
index 166fcc4..3b92090 100644
--- a/ariba/report_filter.py
+++ b/ariba/report_filter.py
@@ -1,4 +1,3 @@
-import openpyxl
import pyfastaq
from ariba import report, flag
@@ -196,21 +195,7 @@ class ReportFilter:
pyfastaq.utils.close(f)
- def _write_report_xls(self, outfile):
- workbook = openpyxl.Workbook()
- worksheet = workbook.worksheets[0]
- worksheet.title = 'ARIBA_report'
- worksheet.append(report.columns)
-
- for ref_name in sorted(self.report):
- for ctg_name, report_dicts in sorted(self.report[ref_name].items()):
- for d in report_dicts:
- worksheet.append([str(d[x]) for x in report.columns])
-
- workbook.save(outfile)
-
-
- def run(self, outprefix):
+ def run(self, outfile):
self._filter_dicts()
- self._write_report_tsv(outprefix + '.tsv')
+ self._write_report_tsv(outfile)
diff --git a/ariba/sequence_metadata.py b/ariba/sequence_metadata.py
index 5b888a2..c0c964b 100644
--- a/ariba/sequence_metadata.py
+++ b/ariba/sequence_metadata.py
@@ -6,28 +6,36 @@ class Error (Exception): pass
class SequenceMetadata:
def __init__(self, line):
try:
- self.name, variant_type, variant_string, identifier, self.free_text = line.rstrip().split('\t')
+ self.name, seq_type, var_only, variant, variant_id, self.free_text = line.rstrip().split('\t')
except:
raise Error('Error parsing line of file:\n' + line)
- self.variant_type = variant_type
+ if seq_type not in {'0', '1'}:
+ raise Error('Error. Second column must be "0" or "1". Cannot continue. Line was:\n' + line)
- if self.variant_type == '.':
+ self.seq_type = 'n' if seq_type == '0' else 'p'
+
+ if var_only not in {'0', '1'}:
+ raise Error('Error. Third column must be "0" or "1". Cannot continue. Line was:\n' + line)
+
+ self.variant_only = var_only == '1'
+
+ if variant == '.':
self.variant = None
else:
- self.variant = sequence_variant.Variant(self.variant_type, variant_string, identifier)
+ self.variant = sequence_variant.Variant(self.seq_type, variant, variant_id)
def __eq__(self, other):
- return type(other) is type(self) and self.name == other.name and self.variant == other.variant and self.variant_type == other.variant_type and self.free_text == other.free_text
+ return type(other) is type(self) and self.name == other.name and self.seq_type == other.seq_type and self.variant_only == other.variant_only and self.variant == other.variant and self.free_text == other.free_text
def __lt__(self, other):
- return self.name < other.name or (self.name == other.name and self.variant < other.variant)
+ return self.name < other.name or (self.name == other.name and self.variant is not None and other.variant is not None and self.variant < other.variant)
def __hash__(self):
- return hash((self.name, self.variant_type, str(self.variant), self.free_text))
+ return hash((self.name, self.seq_type, str(self.variant), self.free_text))
def __str__(self):
@@ -37,7 +45,8 @@ class SequenceMetadata:
def to_string(self, separator='\t'):
return separator.join([
self.name,
- self.variant_type,
+ '1' if self.seq_type == 'p' else '0',
+ '1' if self.variant_only else '0',
'.' if self.variant is None else str(self.variant),
'.' if (self.variant is None or self.variant.identifier is None) else self.variant.identifier,
self.free_text
diff --git a/ariba/summary.py b/ariba/summary.py
index 40a48a5..837ab03 100644
--- a/ariba/summary.py
+++ b/ariba/summary.py
@@ -1,10 +1,9 @@
import os
import copy
-import re
import sys
-import openpyxl
import pyfastaq
-from ariba import flag, common, report, summary_cluster, summary_sample
+import dendropy
+from ariba import summary_sample
class Error (Exception): pass
@@ -19,7 +18,7 @@ class Summary:
filter_rows=True,
filter_columns=True,
min_id=90.0,
- cluster_cols='assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ cluster_cols='assembled,match,ref_seq,pct_id,known_var,novel_var',
variant_cols='groups,grouped,ungrouped,novel',
verbose=False,
):
@@ -55,7 +54,7 @@ class Summary:
@staticmethod
def _determine_cluster_cols(cols_string):
- allowed_cols = {'assembled', 'has_res', 'ref_seq', 'pct_id', 'known_var', 'novel_var'}
+ allowed_cols = {'assembled', 'match', 'ref_seq', 'pct_id', 'known_var', 'novel_var'}
return Summary._determine_cols(cols_string, allowed_cols, 'cluster columns')
@@ -144,7 +143,7 @@ class Summary:
else:
rows[filename][cluster] = {
'assembled': 'no',
- 'has_res': 'no',
+ 'match': 'no',
'ref_seq': 'NA',
'known_var': 'NA',
'novel_var': 'NA',
@@ -186,12 +185,12 @@ class Summary:
matrix = []
making_header_lines = True
phandango_header = ['name']
- phandago_suffixes = {'assembled': ':o1', 'has_res': ':o1', 'ref_seq': ':o2', 'pct_id': ':c1', 'known_var': ':o1', 'novel_var': 'o1'}
+ phandago_suffixes = {'assembled': ':o1', 'match': ':o1', 'ref_seq': ':o2', 'pct_id': ':c1', 'known_var': ':o1', 'novel_var': ':o1'}
+ ref_seq_counter = 2
csv_header = ['name']
- all_cluster_cols_in_order = ['assembled', 'has_res', 'ref_seq', 'pct_id', 'known_var', 'novel_var']
- all_cluster_cols_in_order_set = set(['assembled', 'has_res', 'ref_seq', 'pct_id', 'known_var', 'novel_var'])
+ all_cluster_cols_in_order = ['assembled', 'match', 'ref_seq', 'pct_id', 'known_var', 'novel_var']
+ all_cluster_cols_in_order_set = set(['assembled', 'match', 'ref_seq', 'pct_id', 'known_var', 'novel_var'])
cluster_cols_in_order = [x for x in all_cluster_cols_in_order if cluster_cols[x]]
- cluster_cols_set = set(cluster_cols_in_order)
for filename in filenames:
assert filename in rows
@@ -201,7 +200,10 @@ class Summary:
for col in cluster_cols_in_order:
if making_header_lines:
csv_header.append(cluster_name + '.' + col)
- phandango_header.append(cluster_name + '.' + col + '.' + phandago_suffixes[col])
+ if col == 'ref_seq':
+ phandago_suffixes[col] = ':o' + str(ref_seq_counter)
+ ref_seq_counter += 1
+ phandango_header.append(cluster_name + '.' + col + phandago_suffixes[col])
line.append(rows[filename][cluster_name][col])
@@ -324,26 +326,19 @@ class Summary:
scores[j][i] = scores[i][j]
with open(outfile, 'w') as f:
- sample_names = [x[0] for x in lines]
+ sample_names = [''] + [x[0] for x in lines]
print(*sample_names, sep='\t', file=f)
for i in range(len(scores)):
- print(lines[i][0], *scores[i][1:], sep='\t', file=f)
+ print(lines[i][0], *scores[i], sep='\t', file=f)
@classmethod
def _newick_from_dist_matrix(cls, distance_file, outfile):
- r_script = outfile + '.tmp.R'
-
- with open(r_script, 'w') as f:
- print('library(ape)', file=f)
- print('a=read.table("', distance_file, '", header=TRUE, row.names=1, comment.char="")', sep='', file=f)
- print('h=hclust(dist(a))', file=f)
- print('write.tree(as.phylo(h), file="', outfile, '")', sep='', file=f)
-
- common.syscall('Rscript --no-save ' + r_script)
- if os.path.exists(r_script + 'out'):
- os.unlink(r_script + 'out')
- os.unlink(r_script)
+ with open(distance_file) as f:
+ pdm = dendropy.PhylogeneticDistanceMatrix.from_csv(src=f, delimiter='\t')
+ upgma_tree = pdm.upgma_tree()
+ with open(outfile, 'w') as f:
+ print(upgma_tree.as_string("newick").replace("'", ''), end='', file=f)
def run(self):
diff --git a/ariba/summary_cluster.py b/ariba/summary_cluster.py
index f1bc7bb..927809a 100644
--- a/ariba/summary_cluster.py
+++ b/ariba/summary_cluster.py
@@ -100,7 +100,7 @@ class SummaryCluster:
if len(self.data) == 0:
return 'no'
- if self.data[0]['ref_type'] == 'non_coding':
+ if self.data[0]['gene'] == '0':
has_complete_gene = True
else:
has_complete_gene = self.flag.has('complete_gene')
@@ -216,10 +216,10 @@ class SummaryCluster:
return (data_dict['ref_name'], var_change) + var_group
- def _has_resistance(self, assembled_summary):
+ def _has_match(self, assembled_summary):
'''assembled_summary should be output of _to_cluster_summary_assembled'''
if assembled_summary.startswith('yes'):
- if self.data[0]['ref_type'] in ['non_coding', 'presence_absence'] or self._to_cluster_summary_has_known_nonsynonymous(assembled_summary) == 'yes':
+ if self.data[0]['var_only'] == '0' or self._to_cluster_summary_has_known_nonsynonymous(assembled_summary) == 'yes':
return 'yes'
else:
return 'no'
@@ -242,7 +242,7 @@ class SummaryCluster:
columns = {
'assembled': self._to_cluster_summary_assembled(),
- 'has_res': self._has_resistance(assembled_summary),
+ 'match': self._has_match(assembled_summary),
'ref_seq': self.ref_name,
'pct_id': str(self.pc_id_of_longest()),
'known_var': self._to_cluster_summary_has_known_nonsynonymous(assembled_summary),
diff --git a/ariba/tasks/__init__.py b/ariba/tasks/__init__.py
index e69de29..301d298 100644
--- a/ariba/tasks/__init__.py
+++ b/ariba/tasks/__init__.py
@@ -0,0 +1,14 @@
+__all__ = [
+ 'aln2meta',
+ 'flag',
+ 'getref',
+ 'prepareref',
+ 'refquery',
+ 'reportfilter',
+ 'run',
+ 'summary',
+ 'test',
+ 'version',
+]
+
+from ariba.tasks import *
diff --git a/ariba/tasks/aln2meta.py b/ariba/tasks/aln2meta.py
index f0b655f..f9f5742 100644
--- a/ariba/tasks/aln2meta.py
+++ b/ariba/tasks/aln2meta.py
@@ -2,21 +2,7 @@ import argparse
from ariba import aln_to_metadata
-def run():
- coding_choices = ['coding', 'noncoding']
- parser = argparse.ArgumentParser(
- description = 'Converts multi-alignment fasta and SNP info to metadata',
- usage = 'ariba aln2meta [options] <aln_fasta> <variants_tsv> <(non)coding> <cluster_rep> <outprefix>'
- )
-
- parser.add_argument('--genetic_code', type=int, help='Number of genetic code to use. Currently supported 1,4,11 [%(default)s]', choices=[1,4,11], default=11, metavar='INT')
- parser.add_argument('aln_fasta', help='Multi-fasta file of alignments')
- parser.add_argument('variants_tsv', help='TSV file of variants information')
- parser.add_argument('coding_or_non', help='Sequences are coding or noncoding. Must be one of: ' + ' '.join(coding_choices), choices=coding_choices, metavar='(non)coding')
- parser.add_argument('cluster_rep', help='Name of sequence to be used as cluster representative. Must exactly match a sequence in aln_fasta file')
- parser.add_argument('outprefix', help='Prefix of output filenames')
- options = parser.parse_args()
-
+def run(options):
aln_to_meta = aln_to_metadata.AlnToMetadata(
options.aln_fasta,
options.variants_tsv,
diff --git a/ariba/tasks/flag.py b/ariba/tasks/flag.py
index 630d094..763ba65 100644
--- a/ariba/tasks/flag.py
+++ b/ariba/tasks/flag.py
@@ -1,13 +1,7 @@
import argparse
import ariba
-def run():
- parser = argparse.ArgumentParser(
- description = 'Translate the meaning of a flag output by ARIBA',
- usage = 'ariba flag <flag>')
- parser.add_argument('flag_in', type=int, help='Flag to be translated (an integer)', metavar='flag')
- options = parser.parse_args()
-
+def run(options):
f = ariba.flag.Flag(options.flag_in)
print('Meaning of flag', f)
print(f.to_long_string())
diff --git a/ariba/tasks/getref.py b/ariba/tasks/getref.py
index 1abcc0b..d83e028 100644
--- a/ariba/tasks/getref.py
+++ b/ariba/tasks/getref.py
@@ -2,18 +2,7 @@ import argparse
from ariba import ref_genes_getter
-def run():
- allowed_dbs = ['argannot', 'card', 'resfinder','vfdb']
- parser = argparse.ArgumentParser(
- description = 'Downloads reference data',
- usage = 'ariba getref [options] <' + '|'.join(allowed_dbs) + '> <outprefix>'
- )
-
- parser.add_argument('--genetic_code', type=int, help='Number of genetic code to use. Currently supported 1,4,11 [%(default)s]', choices=[1,4,11], default=11, metavar='INT')
- parser.add_argument('db', help='Database to download. Must be one of: ' + ' '.join(allowed_dbs), choices=allowed_dbs)
- parser.add_argument('outprefix', help='Prefix of output filenames')
- options = parser.parse_args()
-
+def run(options):
getter = ref_genes_getter.RefGenesGetter(options.db, genetic_code=options.genetic_code)
getter.run(options.outprefix)
diff --git a/ariba/tasks/prepareref.py b/ariba/tasks/prepareref.py
index 62fb74e..7a7591a 100644
--- a/ariba/tasks/prepareref.py
+++ b/ariba/tasks/prepareref.py
@@ -2,34 +2,7 @@ import sys
import argparse
from ariba import ref_preparer, external_progs, versions
-def run():
- parser = argparse.ArgumentParser(
- description = 'ARIBA: Antibiotic Resistance Identification By Assembly',
- usage = 'ariba prepareref [options] <outdir>',
- epilog = 'REQUIRED: either --ref_prefix, or at least one of --presabs, --varonly, --noncoding')
- input_group = parser.add_argument_group('input files options')
- input_group.add_argument('--ref_prefix', help='Prefix of input files (same as was used with getref), to save listing --preseabs,--varonly ...etc. Will look for files called "ref_prefix." followed by: metadata.tsv,presence_absence.fa,noncoding.fa,variants_only.fa. Using this will cause these to be ignored if used: --presabs,--varonly,--noncoding,--metadata', metavar='FILENAME_PREFIX')
- input_group.add_argument('--presabs', help='FASTA file of presence absence genes', metavar='FILENAME')
- input_group.add_argument('--varonly', help='FASTA file of variants only genes', metavar='FILENAME')
- input_group.add_argument('--noncoding', help='FASTA file of noncoding sequences', metavar='FILENAME')
- input_group.add_argument('--metadata', help='tsv file of metadata about the reference sequences', metavar='FILENAME')
-
- cdhit_group = parser.add_argument_group('cd-hit options')
- cdhit_group.add_argument('--no_cdhit', action='store_true', help='Do not run cd-hit. Each input sequence is put into its own "cluster". Incompatible with --cdhit_clusters.')
- cdhit_group.add_argument('--cdhit_clusters', help='File specifying how the sequences should be clustered. Will be used instead of running cdhit. Format is one cluster per line. Sequence names separated by whitespace. First name in line is the cluster representative. Incompatible with --no_cdhit', metavar='FILENAME')
- cdhit_group.add_argument('--cdhit_min_id', type=float, help='Sequence identity threshold (cd-hit option -c) [%(default)s]', default=0.9, metavar='FLOAT')
- cdhit_group.add_argument('--cdhit_min_length', type=float, help='length difference cutoff (cd-hit option -s) [%(default)s]', default=0.9, metavar='FLOAT')
-
- other_group = parser.add_argument_group('other options')
- other_group.add_argument('--min_gene_length', type=int, help='Minimum allowed length in nucleotides of reference genes [%(default)s]', metavar='INT', default=6)
- other_group.add_argument('--max_gene_length', type=int, help='Maximum allowed length in nucleotides of reference genes [%(default)s]', metavar='INT', default=10000)
- other_group.add_argument('--genetic_code', type=int, help='Number of genetic code to use. Currently supported 1,4,11 [%(default)s]', choices=[1,4,11], default=11, metavar='INT')
- other_group.add_argument('--threads', type=int, help='Number of threads (currently only applies to cdhit) [%(default)s]', default=1, metavar='INT')
- other_group.add_argument('--verbose', action='store_true', help='Be verbose')
-
- parser.add_argument('outdir', help='Output directory (must not already exist)')
- options = parser.parse_args()
-
+def run(options):
if options.no_cdhit and options.cdhit_clusters is not None:
sys.exit('Cannot use both --no_cdhit and --cdhit_clusters. Neither or exactly one of those options must be used')
@@ -38,13 +11,10 @@ def run():
print(*version_report_lines, sep='\n')
preparer = ref_preparer.RefPreparer(
+ options.fasta_files,
+ options.tsv_files,
extern_progs,
version_report_lines=version_report_lines,
- ref_prefix=options.ref_prefix,
- presabs=options.presabs,
- varonly=options.varonly,
- noncoding=options.noncoding,
- metadata=options.metadata,
min_gene_length=options.min_gene_length,
max_gene_length=options.max_gene_length,
genetic_code=options.genetic_code,
diff --git a/ariba/tasks/refquery.py b/ariba/tasks/refquery.py
new file mode 100644
index 0000000..216a763
--- /dev/null
+++ b/ariba/tasks/refquery.py
@@ -0,0 +1,7 @@
+import sys
+import argparse
+from ariba import refdata_query
+
+def run(options):
+ rquery = refdata_query.RefdataQuery(options.prepareref_dir)
+ rquery.query(options.query_type, options.search_name)
diff --git a/ariba/tasks/reportfilter.py b/ariba/tasks/reportfilter.py
index 4e85fa0..ba7ad56 100644
--- a/ariba/tasks/reportfilter.py
+++ b/ariba/tasks/reportfilter.py
@@ -2,20 +2,7 @@ import argparse
import sys
import ariba
-def run():
- parser = argparse.ArgumentParser(
- description = 'Filters an ARIBA report tsv file',
- usage = 'ariba reportfilter [options] <infile> <outprefix>'
- )
- parser.add_argument('--exclude_flags', help='Comma-separated list of flags to exclude. [%(default)s]', default='assembly_fail,ref_seq_choose_fail')
- parser.add_argument('--min_pc_id', type=float, help='Minimum percent identity of nucmer match between contig and reference [%(default)s]', default=90.0, metavar='FLOAT')
- parser.add_argument('--min_ref_base_asm', type=int, help='Minimum number of reference bases matching assembly [%(default)s]', default=1, metavar='INT')
- parser.add_argument('--keep_syn', action='store_true', help='Keep synonymous variants (by default they are removed')
- parser.add_argument('--discard_without_known_var', action='store_true', help='Applies to variant only genes. Filter out where there is a known variant, but the assembly has the wild type. By default these rows are kept.')
- parser.add_argument('infile', help='Name of input tsv file')
- parser.add_argument('outprefix', help='Prefix of output files. outprefix.tsv and outprefix.xls will be made')
- options = parser.parse_args()
-
+def run(options):
flags_to_exclude = options.exclude_flags.split(',')
allowed_flags = set(ariba.flag.flags_in_order)
bad_flags = [x for x in flags_to_exclude if x not in allowed_flags]
@@ -31,5 +18,5 @@ def run():
ignore_not_has_known_variant=options.discard_without_known_var,
remove_synonymous_snps=not options.keep_syn,
)
- rf.run(options.outprefix)
+ rf.run(options.outfile)
diff --git a/ariba/tasks/run.py b/ariba/tasks/run.py
index a4abb29..668b69d 100644
--- a/ariba/tasks/run.py
+++ b/ariba/tasks/run.py
@@ -4,39 +4,7 @@ import sys
import ariba
-def run():
- parser = argparse.ArgumentParser(
- description = 'ARIBA: Antibiotic Resistance Identification By Assembly',
- usage = 'ariba run [options] <prepareref_dir> <reads1.fq> <reads2.fq> <outdir>')
- parser.add_argument('prepareref_dir', help='Name of output directory when "ariba prepareref" was run')
- parser.add_argument('reads_1', help='Name of fwd reads fastq file')
- parser.add_argument('reads_2', help='Name of rev reads fastq file')
- parser.add_argument('outdir', help='Output directory (must not already exist)')
-
- nucmer_group = parser.add_argument_group('nucmer options')
- nucmer_group.add_argument('--nucmer_min_id', type=int, help='Minimum alignment identity (delta-filter -i) [%(default)s]', default=90, metavar='INT')
- nucmer_group.add_argument('--nucmer_min_len', type=int, help='Minimum alignment length (delta-filter -i) [%(default)s]', default=20, metavar='INT')
- nucmer_group.add_argument('--nucmer_breaklen', type=int, help='Value to use for -breaklen when running nucmer [%(default)s]', default=200, metavar='INT')
-
- assembly_group = parser.add_argument_group('Assembly options')
- assembly_group.add_argument('--assembly_cov', type=int, help='Target read coverage when sampling reads for assembly [%(default)s]', default=50, metavar='INT')
- assembly_group.add_argument('--assembler_k', type=int, help='kmer size to use with assembler. You can use 0 to set kmer to 2/3 of the read length. Warning - lower kmers are usually better. [%(default)s]', metavar='INT', default=21)
- assembly_group.add_argument('--spades_other', help='Put options string to be used with spades in quotes. This will NOT be sanity checked. Do not use -k (see --assembler_k), or -t (use ariba option --threads) [%(default)s]', default="--only-assembler -m 4", metavar="OPTIONS")
- assembly_group.add_argument('--min_scaff_depth', type=int, help='Minimum number of read pairs needed as evidence for scaffold link between two contigs. This is also the value used for sspace -k when scaffolding [%(default)s]', default=10, metavar='INT')
-
- other_group = parser.add_argument_group('Other options')
- other_group.add_argument('--threads', type=int, help='Number of threads [%(default)s]', default=1, metavar='INT')
- bowtie2_presets = ['very-fast-local', 'fast-local', 'sensitive-local', 'very-sensitive-local']
- other_group.add_argument('--bowtie2_preset', choices=bowtie2_presets, help='Preset option for bowtie2 mapping [%(default)s]', default='very-sensitive-local', metavar='|'.join(bowtie2_presets))
- other_group.add_argument('--assembled_threshold', type=float, help='If proportion of gene assembled (regardless of into how many contigs) is at least this value then the flag gene_assembled is set [%(default)s]', default=0.95, metavar='FLOAT (between 0 and 1)')
- other_group.add_argument('--gene_nt_extend', type=int, help='Max number of nucleotides to extend ends of gene matches to look for start/stop codons [%(default)s]', default=30, metavar='INT')
- other_group.add_argument('--unique_threshold', type=float, help='If proportion of bases in gene assembled more than once is <= this value, then the flag unique_contig is set [%(default)s]', default=0.03, metavar='FLOAT (between 0 and 1)')
- other_group.add_argument('--noclean', action='store_true', help='Do not clean up intermediate files')
- other_group.add_argument('--tmp_dir', help='Existing directory in which to create a temporary directory used for local assemblies')
- other_group.add_argument('--verbose', action='store_true', help='Be verbose')
-
- options = parser.parse_args()
-
+def run(options):
reads_not_found = []
for filename in [options.reads_1, options.reads_2]:
@@ -51,10 +19,18 @@ def run():
print('Cannot continue', file=sys.stderr)
sys.exit(1)
+ if (options.reads_1 == options.reads_2):
+ print('Same file provided for forwards and reverse reads. Cannot continue', file=sys.stderr)
+ sys.exit(1)
+
if not os.path.exists(options.prepareref_dir):
print('Input directory', options.prepareref_dir, 'not found. Cannot continue', file=sys.stderr)
sys.exit(1)
+ if os.path.exists(options.outdir):
+ print('Output directory already exists. ARIBA makes the output directory. Cannot continue.', file=sys.stderr)
+ sys.exit(1)
+
extern_progs, version_report_lines = ariba.versions.get_all_versions()
if options.verbose:
print(*version_report_lines, sep='\n')
@@ -66,20 +42,17 @@ def run():
options.outdir,
extern_progs,
version_report_lines=version_report_lines,
- assembly_kmer=options.assembler_k,
assembly_coverage=options.assembly_cov,
- assembler='spades',
+ assembler='fermilite',
threads=options.threads,
verbose=options.verbose,
min_scaff_depth=options.min_scaff_depth,
nucmer_min_id=options.nucmer_min_id,
nucmer_min_len=options.nucmer_min_len,
nucmer_breaklen=options.nucmer_breaklen,
- spades_other=options.spades_other,
assembled_threshold=options.assembled_threshold,
unique_threshold=options.unique_threshold,
max_gene_nt_extend=options.gene_nt_extend,
- bowtie2_preset=options.bowtie2_preset,
clean=(not options.noclean),
tmp_dir=options.tmp_dir,
)
diff --git a/ariba/tasks/summary.py b/ariba/tasks/summary.py
index d4a22f4..8162235 100644
--- a/ariba/tasks/summary.py
+++ b/ariba/tasks/summary.py
@@ -8,7 +8,7 @@ def use_preset(options):
preset_to_vals = {
'minimal': {
- 'cluster_cols': 'has_res',
+ 'cluster_cols': 'match',
'variant_cols': '',
'col_filter': 'y',
'row_filter': 'y',
@@ -17,7 +17,7 @@ def use_preset(options):
'novel_vars': 'n'
},
'cluster_small': {
- 'cluster_cols': 'assembled,has_res,ref_seq,known_var',
+ 'cluster_cols': 'assembled,match,ref_seq,known_var',
'variant_cols': '',
'col_filter': 'y',
'row_filter': 'y',
@@ -26,7 +26,7 @@ def use_preset(options):
'novel_vars': 'n'
},
'cluster_all': {
- 'cluster_cols': 'assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ 'cluster_cols': 'assembled,match,ref_seq,pct_id,known_var,novel_var',
'variant_cols': '',
'col_filter': 'y',
'row_filter': 'y',
@@ -35,7 +35,7 @@ def use_preset(options):
'novel_vars': 'n'
},
'cluster_var_groups': {
- 'cluster_cols': 'assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ 'cluster_cols': 'assembled,match,ref_seq,pct_id,known_var,novel_var',
'variant_cols': 'groups',
'col_filter': 'y',
'row_filter': 'y',
@@ -44,7 +44,7 @@ def use_preset(options):
'novel_vars': 'n'
},
'cluster_known_vars': {
- 'cluster_cols': 'assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ 'cluster_cols': 'assembled,match,ref_seq,pct_id,known_var,novel_var',
'variant_cols': 'groups,grouped,ungrouped',
'col_filter': 'y',
'row_filter': 'y',
@@ -53,7 +53,7 @@ def use_preset(options):
'novel_vars': 'n'
},
'all': {
- 'cluster_cols': 'assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ 'cluster_cols': 'assembled,match,ref_seq,pct_id,known_var,novel_var',
'variant_cols': 'groups,grouped,ungrouped,novel',
'col_filter': 'y',
'row_filter': 'y',
@@ -62,7 +62,7 @@ def use_preset(options):
'novel_vars': 'y'
},
'all_no_filter': {
- 'cluster_cols': 'assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ 'cluster_cols': 'assembled,match,ref_seq,pct_id,known_var,novel_var',
'variant_cols': 'groups,grouped,ungrouped,novel',
'col_filter': 'n',
'row_filter': 'n',
@@ -80,24 +80,7 @@ def use_preset(options):
return options
-def run():
- presets = ['minimal', 'cluster_small', 'cluster_all', 'cluster_var_groups', 'cluster_known_vars', 'all', 'all_no_filter']
-
- parser = argparse.ArgumentParser(
- description = 'Make a summary of ARIBA report files, and Phandango files',
- usage = 'ariba summary [options] <outprefix> [report1.tsv report2.tsv ...]',
- epilog = 'Files must be listed after the output file and/or the option --fofn must be used. If both used, all files in the filename specified by --fofn AND the files listed after the output file will be used as input.')
- parser.add_argument('-f', '--fofn', help='File of filenames of ariba reports in tsv format (not xls) to be summarised. Must be used if no input files listed after the outfile.', metavar='FILENAME')
- parser.add_argument('--preset', choices=presets, help='Shorthand for setting --cluster_cols,--col_filter,--row_filter,--known_vars,--novel_vars. Using this overrides those options', metavar='|'.join(presets))
- parser.add_argument('--cluster_cols', help='Comma separated list of cluster columns to include. Choose from: assembled, has_res, ref_seq, pct_id, known_var, novel_var [%(default)s]', default='has_res', metavar='col1,col2,...')
- parser.add_argument('--col_filter', choices=['y', 'n'], default='y', help='Choose whether columns where all values are "no" or "NA" are removed [%(default)s]', metavar='y|n')
- parser.add_argument('--row_filter', choices=['y', 'n'], default='y', help='Choose whether rows where all values are "no" or "NA" are removed [%(default)s]', metavar='y|n')
- parser.add_argument('--var_cols', help='Comma separated list of variant columns to include. Choose from: groups, grouped, ungrouped, novel [none by default]', metavar='col1,col2,...', default='')
- parser.add_argument('--min_id', type=float, help='Minimum percent identity cutoff to count as assembled [%(default)s]', default=90, metavar='FLOAT')
- parser.add_argument('--verbose', action='store_true', help='Be verbose')
- parser.add_argument('outprefix', help='Prefix of output files')
- parser.add_argument('infiles', nargs='*', help='Files to be summarised')
- options = parser.parse_args()
+def run(options):
if len(options.infiles) == 0:
options.infiles = None
diff --git a/ariba/tasks/test.py b/ariba/tasks/test.py
index 00177d1..b0d2f57 100644
--- a/ariba/tasks/test.py
+++ b/ariba/tasks/test.py
@@ -14,13 +14,7 @@ def boxymcboxface(message):
print('-' * 79)
-def run():
- parser = argparse.ArgumentParser(
- description = 'Run ARIBA on a small test dataset',
- usage = 'ariba test [options] <outdir>')
- parser.add_argument('--threads', type=int, help='Number of threads [%(default)s]', default=1, metavar='INT')
- parser.add_argument('outdir', help='Name of output directory')
- options = parser.parse_args()
+def run(options):
ariba_exe = os.path.abspath(sys.argv[0])
print('Running ARIBA on test data...')
@@ -39,7 +33,7 @@ def run():
modules_dir = os.path.dirname(os.path.abspath(ariba.__file__))
test_data_dir = os.path.join(modules_dir, 'test_run_data')
- for filename in ['presence_absence.fa', 'non_coding.fa', 'variants_only.fa', 'metadata.tsv', 'reads_1.fq', 'reads_2.fq']:
+ for filename in ['ref_seqs.fa', 'metadata.tsv', 'reads_1.fq', 'reads_2.fq']:
shutil.copy(os.path.join(test_data_dir, filename), filename)
print(' copied', filename)
@@ -50,10 +44,8 @@ def run():
ariba_exe,
'prepareref',
'--verbose',
- '--presabs presence_absence.fa',
- '--varonly variants_only.fa',
- '--noncoding non_coding.fa',
- '--metadata metadata.tsv',
+ '-f ref_seqs.fa',
+ '-m metadata.tsv',
'--threads', str(options.threads),
'PREPAREREF',
])
diff --git a/ariba/tasks/version.py b/ariba/tasks/version.py
index b89f8cc..5c8b2a5 100644
--- a/ariba/tasks/version.py
+++ b/ariba/tasks/version.py
@@ -1,6 +1,6 @@
import sys
from ariba import versions
-def run():
+def run(options):
extern_progs, report_lines = versions.get_all_versions(raise_error=False)
print(*report_lines, sep='\n')
diff --git a/ariba/test_run_data/metadata.tsv b/ariba/test_run_data/metadata.tsv
index 04b6107..9d24ab1 100644
--- a/ariba/test_run_data/metadata.tsv
+++ b/ariba/test_run_data/metadata.tsv
@@ -1,14 +1,19 @@
-presence_absence1 . . . Generic description of presence_absence1
-presence_absence1 p R3S . Ref and assembly have wild type, so do not report
-presence_absence1 p A10V . Ref has wild, reads have variant so report
-presence_absence1 p I5A . Ref and reads have variant so report
-variants_only1 . . . Generic description of variants_only1
-variants_only1 p I3L . Ref and assembly have wild type, so do not report
-variants_only1 p S5T . Ref and reads have variant so report
-variants_only2 p R3I . Ref and reads have wild so do not report
-variants_only2 . . . Generic description of variants_only2
-noncoding1 . . . generic description of noncoding1
-noncoding1 n A6G . variant in ref and reads so should report
-noncoding1 n G9T . wild type in ref and reads so should not report
-noncoding1 n A14T noncoding_group1 ref has wild type, reads have variant so should report
-noncoding1 n A40C . ref has variant, reads have wild type so should not report
+gene1 1 0 . . Generic description of presence_absence1
+gene1 1 0 R3S . Ref and assembly have wild type, so do not report
+gene1 1 0 A10V . Ref has wild, reads have variant so report
+gene1 1 0 I5A . Ref and reads have variant so report
+gene2 1 0 . . Generic description of presence_absence2
+gene.var_only1 1 1 . . Generic description of variants_only1
+gene.var_only1 1 1 I3L . Ref and assembly have wild type, so do not report
+gene.var_only1 1 1 S5T . Ref and reads have variant so report
+gene.var_only2 1 1 R3I . Ref and reads have wild so do not report
+gene.var_only2 1 1 . . Generic description of variants_only2
+noncoding1 0 0 . . generic description of noncoding1
+noncoding1 0 0 A6G . variant in ref and reads so should report
+noncoding1 0 0 G9T . wild type in ref and reads so should not report
+noncoding1 0 0 A14T noncoding_group1 ref has wild type, reads have variant so should report
+noncoding1 0 0 A40C . ref has variant, reads have wild type so should not report
+noncoding2 0 0 . . generic description of noncoding2
+noncoding3 0 0 . . generic description of noncoding3
+noncoding.var_only1 0 1 C6T . sample does not have this SNP
+noncoding.var_only2 0 1 T10A . sample does have this SNP
diff --git a/ariba/test_run_data/non_coding.fa b/ariba/test_run_data/non_coding.fa
deleted file mode 100644
index df05244..0000000
--- a/ariba/test_run_data/non_coding.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->noncoding1
-CGTACGCGGGTGGAGACATGTACTCCACTCCCATACATCCCTAAGTTTGTCCCTAAGGCA
-GTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCAC
->noncoding2
-TCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCT
-GCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCC
->noncoding3
-CTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGAT
-CATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACTGAATCT
-CACGTACTGACTCATCATCATCATACTCATCATATCATCGATCGATCATCTGATCTGATG
diff --git a/ariba/test_run_data/presence_absence.fa b/ariba/test_run_data/presence_absence.fa
deleted file mode 100644
index 638f8a0..0000000
--- a/ariba/test_run_data/presence_absence.fa
+++ /dev/null
@@ -1,5 +0,0 @@
->presence_absence1
-ATGGATCGCGAAGCGATGACCCATGAAGCAACCGAACGCGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGATTTAA
->presence_absence2
-ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
diff --git a/ariba/test_run_data/reads_1.fq b/ariba/test_run_data/reads_1.fq
index 70deca9..7e34e6a 100644
--- a/ariba/test_run_data/reads_1.fq
+++ b/ariba/test_run_data/reads_1.fq
@@ -1,908 +1,2088 @@
- at presence_absence1:1:154:213/1
-TAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATA
+ at gene1:1:116:235/1
+ACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:2:64:123/1
-CTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:2:147:267/1
+TAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:3:21:79/1
-ACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:3:197:318/1
+CGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACCTAGGTGCGAAGTGCAGATGGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:4:116:174/1
-ATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:4:162:281/1
+TGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:5:16:76/1
-CTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:5:92:212/1
+TCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:6:76:136/1
-TGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:6:178:296/1
+GACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:7:120:180/1
-CCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:7:85:204/1
+TCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:8:69:129/1
-TTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:8:136:255/1
+TGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:9:31:91/1
-CTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:9:128:248/1
+CTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:10:76:135/1
-TGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:10:95:215/1
+AAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:11:173:233/1
-AGCGCGTGGGAAAGCATGGAATAAGGACATACCTAGGTGCGAAGTGCAGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:11:140:258/1
+TTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:12:37:99/1
-ACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:12:63:181/1
+AAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:13:131:190/1
-ACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:13:148:268/1
+AGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:14:94:153/1
-GCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:14:4:123/1
+GTAGTCAGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:15:46:104/1
-AAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:15:160:280/1
+TATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:16:115:175/1
-GATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:16:51:170/1
+TTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:17:44:103/1
-CTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:17:174:295/1
+CGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:18:141:201/1
-CGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:18:9:129/1
+CAGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:19:149:210/1
-AACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:19:48:167/1
+TACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:20:63:124/1
-CCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:20:49:169/1
+ACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:21:60:122/1
-CTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:21:16:135/1
+CATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:22:111:169/1
-AAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:22:79:199/1
+TAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:23:90:150/1
-TGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:23:62:180/1
+TAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:24:56:114/1
-ACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:24:72:193/1
+AACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:25:21:80/1
-ACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:25:89:210/1
+CACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:26:59:118/1
-TCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:26:119:240/1
+TCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:27:19:77/1
-TAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:27:200:322/1
+GCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACCTAGGTGCGAAGTGCAGATGGTTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:28:125:186/1
-GAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:28:64:185/1
+AGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:29:31:89/1
-CTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:29:176:296/1
+ATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:30:64:125/1
-CTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:30:84:205/1
+TTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:31:150:211/1
-ACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:31:43:162/1
+CTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:32:144:205/1
-GCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:32:7:127/1
+GTCAGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:33:59:119/1
-TCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:33:8:128/1
+TCAGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:34:40:99/1
-GCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:34:92:212.dup.2/1
+TCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:35:105:165/1
-ATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:35:83:203/1
+GTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:36:114:174/1
-CGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:36:75:195/1
+CCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:37:82:142/1
-TGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:37:176:295/1
+ATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:38:75:137/1
-CTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:38:63:183/1
+AAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:39:67:129/1
-TCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:39:92:209/1
+TCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:40:34:93/1
-TAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:40:86:205/1
+CAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:41:163:222/1
-TAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACCTAGGTGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:41:106:225/1
+AAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:42:42:102/1
-GCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:42:108:228/1
+ACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:43:148:207/1
-CAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:43:134:254/1
+GCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:44:117:177/1
-TGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:44:47:166/1
+GTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:45:54:114/1
-AGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:45:17:137/1
+ATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:46:8:66/1
-ATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:46:7:125/1
+GTCAGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:47:74:134/1
-GCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:47:102:222/1
+GCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:48:6:65/1
-AAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:48:63:183.dup.2/1
+AAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:49:131:189/1
-AGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:49:144:263/1
+GCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:50:179:238/1
-GCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:50:28:147/1
+CATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:51:60:121/1
-AGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:51:200:320/1
+GCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACCTAGGTGCGAAGTGCAGATGGTTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:52:117:176/1
-AAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:52:21:143/1
+TCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:53:161:222/1
-GAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:53:75:194/1
+CCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:54:99:157/1
-CTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:54:190:310/1
+AACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGACATACCTAGGTGCGAAGTGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:55:168:227/1
-AAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:55:170:290/1
+GAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAAGGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:56:7:67/1
-AATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:56:10:129/1
+AGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:57:9:67/1
-TCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:57:165:284/1
+ATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:58:163:221/1
-ACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:58:142:262/1
+TGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:59:31:93/1
-GGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:59:147:266/1
+TAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:60:57:117/1
-GGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:60:131:251/1
+GTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:61:13:72/1
-AGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:61:141:260/1
+TTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:62:19:79/1
-TTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:62:127:246/1
+TCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACATTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:63:153:215/1
-CGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:63:32:151/1
+CAGTCATCTGACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:64:116:173/1
-GAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:64:42:161/1
+ACTGAGTACTTCATCATTATTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:65:18:76/1
-CTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:65:106:227/1
+AAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:66:155:215/1
-CTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:66:99:218/1
+CGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:67:84:143/1
-TTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:67:124:244/1
+CTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGCACCAACAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:68:62:120/1
-GGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:68:78:198/1
+ATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:69:165:223/1
-GCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:69:116:235.dup.2/1
+ACTTCTTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGACCCATGAAGTAACCGAACGCGCGAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:70:1:62/1
-TAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:70:147:267/1
+CTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:71:25:86/1
-CCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:71:171:291/1
+GCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:72:120:180/1
-ACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:72:188:306/1
+GAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:73:164:222/1
-CGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:73:176:295/1
+GAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:74:149:210/1
-ACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:74:29:149/1
+GAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:75:173:233/1
-AGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:75:152:270/1
+TGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:76:179:238.dup.2/1
-GCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:76:111:230/1
+ATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:77:62:122/1
-GGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:77:12:131/1
+AGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:78:76:136/1
-TAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:78:8:126/1
+CGTCAGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:79:12:72/1
-GAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:79:205:327/1
+GTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCAGCTGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:80:107:167/1
-ATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:80:75:194/1
+TAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:81:55:113/1
-GCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:81:190:309/1
+AAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:82:35:95/1
-GTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:82:69:189/1
+TCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:83:168:228/1
-AAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:83:43:161/1
+CTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:84:180:240/1
-CGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:84:7:125/1
+ACGTCAGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:85:97:157/1
-ATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:85:85:205/1
+CCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:86:119:177/1
-AACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:86:2:121/1
+TACTGACGTCAGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:87:157:216/1
-GACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:87:139:259/1
+CAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:88:40:101/1
-CATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:88:44:163/1
+TCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:89:42:101/1
-TGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:89:80:201/1
+TCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:90:14:75/1
-GTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:90:98:217/1
+CTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:91:47:106/1
-TTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:91:116:235/1
+CGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:92:9:67/1
-GCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:92:80:199/1
+TCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:93:56:116/1
-GGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:93:123:243/1
+GAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:94:18:78/1
-AGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:94:97:216/1
+TCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:95:47:106.dup.2/1
-TTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:95:12:131.dup.2/1
+AGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:96:38:97/1
-TCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:96:44:165/1
+TCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:97:144:203/1
-CGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:97:189:307/1
+AAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:98:31:90/1
-GAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:98:144:263/1
+TTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:99:147:206/1
-CCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:99:78:196/1
+CTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:100:11:71/1
-CCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:100:114:235/1
+AGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:101:8:69/1
-GGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:101:39:159/1
+GCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:102:45:106/1
-TATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:102:76:195/1
+AGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:103:83:142/1
-CAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:103:104:224/1
+TCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:104:124:183/1
-TACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:104:11:130/1
+CAGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:105:32:91/1
-AACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:105:92:212/1
+GTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:106:12:72/1
-CGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:106:174:293/1
+CCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:107:156:214/1
-CGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:107:181:302/1
+CACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:108:85:145/1
-AGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:108:35:157/1
+GAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:109:84:145/1
-AAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:109:14:135/1
+TCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:110:60:117/1
-CTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:110:32:153/1
+AGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:111:131:191/1
-CATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:111:152:270.dup.2/1
+TGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:112:23:84/1
-TGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:112:187:306/1
+CGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:113:125:186/1
-ACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:113:105:225/1
+CTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:114:160:220/1
-CGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:114:185:305/1
+ACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:115:148:207/1
-CACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:115:206:325/1
+TGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCAGCTGCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:116:126:186/1
-CCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:116:12:134/1
+AGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:117:155:214/1
-GCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:117:156:274/1
+GATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:118:79:138/1
-CCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:118:123:243.dup.2/1
+GAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:119:158:216/1
-AGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:119:197:316/1
+GAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:120:139:199/1
-CATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:120:109:230/1
+TGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:121:55:114/1
-CGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:121:4:124/1
+CTGACGTCAGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:122:153:213/1
-TTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:122:117:237/1
+GGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:123:20:79/1
-AGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:123:199:317/1
+ACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:124:154:215/1
-TGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:124:37:156/1
+GAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:125:178:235/1
-TTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGGTACCAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:125:205:323/1
+GTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCAGCTGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:126:150:210/1
-CCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:126:87:206/1
+TCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:127:16:76/1
-TAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:127:174:293.dup.2/1
+CCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:128:6:65/1
-CAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:128:205:324/1
+GTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCAGCTGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:129:15:75/1
-TTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:129:195:313/1
+GCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:130:116:175/1
-AAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:130:161:279/1
+ATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGACCGAATAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:131:204:263/1
-ACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:131:16:136/1
+AGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:132:64:123/1
-ACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:132:145:265/1
+TACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:133:104:164/1
-ACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:133:74:193/1
+GTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:134:131:188/1
-CCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:134:12:131.dup.3/1
+AGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:135:65:126/1
-CTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:135:93:213/1
+TTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:136:152:213/1
-CCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:136:126:246/1
+TCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:137:73:133/1
-ATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:137:51:170/1
+CTACTGACTATAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTAGGGAATCTCAAGTGCTAGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:138:35:94/1
-TAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:138:154:274/1
+CTGATCTATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGCGAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:139:142:202/1
-TAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:139:141:261/1
+GCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:140:196:256/1
-CTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:140:155:276/1
+TTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:141:198:255/1
-TAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:141:125:243/1
+GCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:142:27:86/1
-GGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:142:128:248/1
+GTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:143:153:212/1
-CTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:143:35:154/1
+GCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:144:1:59/1
-ATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:144:83:202/1
+TGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:145:89:149/1
-GTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:145:150:270/1
+TGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:146:178:237/1
-ACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:146:161:280/1
+ATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:147:67:126/1
-TTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:147:11:132/1
+GAAGAGGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:148:17:77/1
-TGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:148:36:155/1
+CTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:149:64:124/1
-ACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:149:127:247/1
+CGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:150:116:174/1
-ACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:150:199:319/1
+CATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGGTACCAACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:151:147:205/1
-TTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:151:29:150/1
+TCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:152:95:155/1
-CAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:152:93:212/1
+ACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:153:176:235/1
-GAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:153:56:176/1
+CGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:154:202:262/1
-GAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:154:20:140/1
+GTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:155:176:236/1
-GAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:155:83:203/1
+TGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:156:94:154/1
-CCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:156:37:157/1
+TCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:157:71:128/1
-GAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:157:106:226/1
+ATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:158:200:259/1
-GGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:158:189:307/1
+GCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:159:102:162/1
-GTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:159:11:131/1
+GAAGAGGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:160:142:199/1
-TAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:160:177:296/1
+AAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:161:195:254/1
-GCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:161:69:191/1
+GCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:162:73:133.dup.2/1
-ATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:162:14:133/1
+GAGGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:163:117:175/1
-CATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:163:18:139/1
+TGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:164:49:109/1
-TCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:164:128:247/1
+GTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:165:80:138/1
-TTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:165:99:218/1
+CCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:166:177:235/1
-AACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:166:34:153/1
+CGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:167:71:131/1
-GAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:167:158:277/1
+TACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:168:56:116/1
-TACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:168:83:205/1
+TGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:169:171:230/1
-CCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:169:50:170/1
+TCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:170:134:194/1
-TACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:170:172:292/1
+AGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:171:26:86/1
-TGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:171:194:314/1
+GAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGGTAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:172:182:241/1
-ACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:172:169:289/1
+CGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:173:80:141/1
-TTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:173:16:136/1
+GGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:174:208:267/1
-CATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTCGAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:174:133:253/1
+CACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:175:30:91/1
-TACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:175:158:276/1
+TACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:176:206:266/1
-GCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:176:167:287/1
+CGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:177:81:139/1
-TATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:177:108:227/1
+TAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:178:10:67/1
-GTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:178:134:254/1
+ACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:179:199:258/1
-GGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCTGTATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:179:60:180/1
+CATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:180:35:94/1
-GGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:180:129:248/1
+TGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:181:186:244/1
-ACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:181:17:137/1
+GTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:182:43:100/1
-AATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:182:18:139.dup.2/1
+TGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:183:75:135/1
-TGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:183:4:124/1
+AGAGATAGAAGAGGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:184:57:117/1
-ATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:184:15:135/1
+AGGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:185:122:181/1
-ATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:185:66:187/1
+CAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:186:186:245/1
-ACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:186:56:176.dup.2/1
+CGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:187:99:158/1
-GATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:187:92:211/1
+AACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:188:57:115/1
-ATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:188:152:272/1
+ACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:189:136:196/1
-ATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:189:134:254.dup.2/1
+ACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:190:23:81/1
-CACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:190:98:218/1
+TCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:191:97:156/1
-TAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:191:69:187/1
+GCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:192:58:118/1
-TTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:192:156:275/1
+TCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:193:156:214/1
-GCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:193:164:283/1
+TTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:194:157:215/1
-CGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:194:146:266/1
+GTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:195:11:71/1
-AGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:195:155:276.dup.2/1
+TTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:196:164:226/1
-ATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:196:83:202.dup.2/1
+TGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:197:60:119/1
-TATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:197:191:311/1
+CATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:198:152:212/1
-AAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:198:71:192/1
+CCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:199:200:260/1
-GTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCTGTATGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:199:193:313/1
+TGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGGTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:200:167:225/1
-CAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:200:91:211/1
+GAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:201:24:86/1
-ACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:201:200:320/1
+ATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTATGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGGTACCAACTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:202:144:203/1
-TTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:202:105:223/1
+TATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:203:41:101/1
-CGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:203:69:189/1
+GCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:204:189:249/1
-GTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:204:143:263/1
+CAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:205:29:89/1
-ACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:205:111:229/1
+AGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:206:194:253/1
-CGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:206:55:173/1
+ACGTGCATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCCTTTCGCCGTGGTCACCTCCCGCCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:207:140:199/1
-TAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:207:211:330/1
+CCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:208:168:227/1
-AAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:208:148:267/1
+AGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:209:89:148/1
-GACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:209:227:346/1
+GCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTCGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:210:193:252/1
-ACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:210:131:253/1
+GAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:211:166:224/1
-ACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:211:95:213/1
+TAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:212:150:209/1
-CCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:212:167:286/1
+CGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:213:197:256/1
-CGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCTGTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:213:7:126/1
+AGCTCTTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:214:36:97/1
-GACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:214:119:239/1
+CTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:215:47:107/1
-CACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:215:64:183/1
+TGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:216:165:224/1
-TACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:216:4:123/1
+AAAAGCTCTTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:217:150:208/1
-CCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:217:62:182/1
+TGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:218:26:87/1
-GGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:218:45:165/1
+TGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:219:43:102/1
-AATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:219:81:202/1
+TTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:220:161:221/1
-GCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:220:196:315/1
+CATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:221:129:189/1
-CTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:221:35:153/1
+GTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:222:185:244/1
-GACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:222:133:254/1
+ATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:223:8:68/1
-ACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:223:177:294/1
+CATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:224:183:242/1
-CGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:224:224:342/1
+CCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:225:100:159/1
-ATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:225:4:125/1
+AAAAGCTCTTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:226:100:159.dup.2/1
-ATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:226:54:172/1
+ACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding3/1
-CATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:227:43:162/1
+GATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:228:13:130/1
+TGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:229:134:252/1
+TCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:230:11:131/1
+CTTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:231:24:142/1
+TTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:232:145:264/1
+TTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:233:35:154/1
+GTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:234:106:225/1
+CTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:235:167:286.dup.2/1
+CGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:236:80:201/1
+CTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:237:100:219/1
+AGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:238:144:262/1
+CTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:239:61:180/1
+ATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:240:14:135/1
+GGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:241:190:309/1
+CCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:242:22:142/1
+CTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:243:226:346/1
+CGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:244:49:168/1
+GATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:245:174:293/1
+TGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:246:37:155/1
+CTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:247:65:184/1
+GGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:248:84:203/1
+GCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:249:62:181/1
+TGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:250:12:130/1
+TTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:251:121:241/1
+TACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:252:105:225/1
+CCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:253:149:269/1
+GTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:254:163:282/1
+TACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:255:186:303/1
+CACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:256:118:238/1
+CCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:257:137:255/1
+GGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:258:136:256/1
+AGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:259:126:243/1
+TTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:260:172:293/1
+GGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:261:66:185/1
+GTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:262:173:294/1
+GTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:263:230:348/1
+GCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGACCGACTTCGGATTCGAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:264:195:316/1
+ACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:265:172:291/1
+GGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:266:148:268/1
+AGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:267:65:184.dup.2/1
+GGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:268:2:120/1
+ACAAAAGCTCTTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:269:195:316.dup.2/1
+ACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:270:197:316/1
+ATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:271:69:189/1
+TGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:272:35:155/1
+GTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:273:47:167/1
+TAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:274:201:318/1
+CTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:275:158:276/1
+CCTCGTACGCGGGTGGTGACATGTACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:276:14:134/1
+GGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTTATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:277:104:224/1
+TCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATGTACTCCACTCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:278:65:185/1
+GGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCTTACACTTTTCGAATCAGGGTTATCTTCAGTCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:279:205:325/1
+GTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:280:21:141/1
+CGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:281:11:131/1
+GCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:282:47:165/1
+TCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:283:213:333/1
+AGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:284:82:202/1
+CCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:285:151:272/1
+CTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:286:161:279/1
+TCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:287:117:235/1
+ATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:288:20:138/1
+GCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:289:216:336/1
+GCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:290:9:129/1
+GGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:291:199:319/1
+TTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:292:46:165/1
+GTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:293:29:150/1
+GCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:294:131:248/1
+GCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:295:122:242/1
+TGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:296:20:139/1
+GCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:297:193:311/1
+CAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:298:166:284/1
+AACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:299:135:255/1
+TGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:300:147:265/1
+TTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:301:189:310/1
+CTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:302:86:208/1
+GGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:303:199:320/1
+TTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:304:40:161/1
+ACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:305:200:321/1
+TAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:306:51:171/1
+ATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:307:113:233/1
+CGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:308:184:302/1
+CGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:309:56:174/1
+ATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:310:227:346/1
+CAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCTGTATGGACCAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:311:64:183/1
+CTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:312:126:246/1
+TATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:313:75:195/1
+ACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:314:128:246/1
+TCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:315:160:279/1
+ATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:316:49:169/1
+AAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:317:108:226/1
+ACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:318:86:206/1
+GGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:319:226:345/1
+ACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTCTCTGTATGGACCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:320:148:267/1
+TGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:321:146:268/1
+GTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:322:170:289/1
+GTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:323:118:239/1
+TTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:324:86:205/1
+GGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:325:158:277/1
+AGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:326:177:298/1
+ACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:327:185:306/1
+GCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:328:72:192/1
+GGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:329:11:130/1
+GCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:330:23:143/1
+CTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:331:159:278/1
+GATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:332:191:310/1
+TGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:333:92:211/1
+TTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:334:5:123/1
+ACCGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:335:6:125/1
+CCGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:336:177:296/1
+ACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:337:94:213/1
+TGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:338:7:128/1
+CGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:339:199:317/1
+TTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:340:3:124/1
+TGACCGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:341:35:155/1
+CTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:342:69:188/1
+CAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:343:184:305/1
+CGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:344:105:225/1
+TACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:345:102:221/1
+GAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:346:18:135/1
+AAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:347:201:321/1
+AAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:348:128:248/1
+TCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:349:100:219/1
+TCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTGTATCGCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:350:72:192.dup.2/1
+GGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTTATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:351:6:126/1
+CCGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATGCGACTACACAAGGTACCGGGCCCACGGCACATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:352:170:289.dup.2/1
+GTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:353:8:127/1
+CTGCATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:354:17:136/1
+ACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:355:22:141/1
+ACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:356:61:183/1
+CTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:357:85:204/1
+ACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:358:89:209/1
+ACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACTGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:359:53:174/1
+AAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:360:22:143/1
+ACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:361:8:127.dup.2/1
+CTGCATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:362:20:139/1
+TGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:363:21:140/1
+GACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:364:37:155/1
+GATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:365:53:172/1
+AAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:366:84:202/1
+GACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:367:43:162/1
+GATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:368:67:186/1
+TACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:369:33:154/1
+CTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:370:85:204.dup.2/1
+ACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:371:11:129/1
+CATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:372:52:172/1
+GAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:373:15:135/1
+ATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:374:85:205/1
+ACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:375:16:137/1
+TACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:376:60:179/1
+GCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:377:71:191/1
+ACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:378:44:164/1
+ATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:379:82:201/1
+CTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:380:10:129/1
+GCATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:381:61:181/1
+CTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:382:66:184/1
+TTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:383:77:197/1
+ACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:384:84:203/1
+GACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:385:65:186/1
+CTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:386:43:164/1
+GATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:387:19:138/1
+TTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:388:66:186/1
+TTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:389:74:194/1
+ATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:390:67:187/1
+TACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:391:31:149/1
+CTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:392:1:120/1
+GGACAACCTGCATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:393:11:133/1
+CATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:394:68:188/1
+ACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:395:68:188.dup.2/1
+ACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:396:6:126/1
+ACCTGCATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:397:23:142/1
+CCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:398:22:141.dup.2/1
+ACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:399:51:171/1
+CGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:400:76:195/1
+GACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:401:15:134/1
+ATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:402:34:155/1
+TCAGATGACGATATGCTCGAAATCGCGCTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:403:3:122/1
+TGGGGTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:404:67:187/1
+GACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:405:150:270/1
+CGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAGCGCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:406:43:161/1
+CCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:407:85:205/1
+GCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:408:92:211/1
+CGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:409:119:239/1
+CCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:410:69:188/1
+CGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:411:103:224/1
+GGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:412:23:144/1
+CACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:413:2:120/1
+TTGGGGTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:414:23:144.dup.2/1
+CACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:415:147:265/1
+CGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:416:99:219/1
+TCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:417:21:142/1
+ATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:418:124:244/1
+ATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:419:54:173/1
+GCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:420:19:140/1
+AAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:421:103:223/1
+GGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:422:30:152/1
+AAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:423:151:270/1
+GTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAGCGCAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:424:37:156/1
+AACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:425:1:119/1
+CTTGGGGTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:426:124:244.dup.2/1
+ATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:427:121:240/1
+CGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:428:96:216/1
+GTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:429:53:174/1
+AGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:430:41:160/1
+GTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:431:56:175/1
+TAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:432:18:136/1
+AAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:433:22:141/1
+TCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:434:87:205/1
+GTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:435:7:126/1
+GTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:436:48:168/1
+TTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:437:47:168/1
+TTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:438:49:168/1
+TCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:439:144:263/1
+CGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:440:90:211/1
+GTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:441:66:185/1
+CGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:442:45:166/1
+CGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:443:68:185/1
+ACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:444:76:193/1
+ACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:445:62:181/1
+GTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:446:117:236/1
+CCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:447:3:121/1
+TGGGGTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:448:25:144/1
+CTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:449:132:252/1
+TCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:450:44:165/1
+CCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:451:122:243/1
+GTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:452:124:242/1
+ATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:453:93:212/1
+GACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:454:7:126.dup.2/1
+GTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:455:99:218/1
+TCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:456:104:223/1
+GCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:457:136:254/1
+CGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:458:120:240/1
+CCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:459:151:271/1
+GTAGTCAGTCACGAGCAGAGAGAGAGGAGGCTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAGCGCAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:460:18:136.dup.2/1
+AAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:461:2:122/1
+TTGGGGTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGGCGTATCGACGTACTGACGTCGTATGCGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:462:90:210/1
+GTCGACGTGTCCAGGCGCGCCGCGCGCCCCCCGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:463:68:190/1
+TCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:464:2:122/1
+GCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:465:14:135/1
+TACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:466:138:257/1
+ACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:467:110:230/1
+GATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:468:2:122.dup.2/1
+GCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:469:56:174/1
+TTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:470:151:270/1
+GTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:471:33:150/1
+AGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:472:121:242/1
+GGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:473:1:122/1
+TGCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:474:12:132/1
+AGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:475:3:124/1
+CTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:476:16:136/1
+CGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:477:149:269/1
+ACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:478:29:149/1
+GGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:479:4:123/1
+TAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:480:148:266/1
+TACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:481:36:156/1
+CCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:482:8:129/1
+TCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:483:20:139/1
+GCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:484:130:247/1
+AACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:485:104:224/1
+CTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:486:16:135/1
+CGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:487:88:206/1
+TCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:488:58:178/1
+TGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:489:123:243/1
+TGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:490:122:243/1
+GTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:491:116:235/1
+ACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:492:141:260/1
+AGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:493:138:258/1
+ACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:494:148:268/1
+TACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:495:127:246/1
+ACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:496:23:144/1
+TCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:497:2:120/1
+GCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:498:144:263/1
+GTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:499:11:133/1
+CAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:500:132:252/1
+CGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:501:58:178.dup.2/1
+TGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:502:149:269.dup.2/1
+ACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:503:2:123/1
+GCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:504:121:240/1
+GGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:505:1:121/1
+TGCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:506:107:226/1
+ATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:507:6:125/1
+GTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:508:35:155/1
+GCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:509:87:206/1
+ATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:510:139:259/1
+CCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:511:94:214/1
+TACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:512:108:227/1
+TCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:513:30:149/1
+GCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:514:137:256/1
+GACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:515:5:125/1
+AGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:516:114:234/1
+GTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:517:47:168/1
+TCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:518:76:197/1
+CTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:519:4:123.dup.2/1
+TAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGTCTATCCATCTACTGACTGATCGATCGATCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:520:125:245/1
+TCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGATCGATCGATCATCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:521:99:217/1
+ACTGACTGATCGATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:522:110:232/1
+GATCGTACTGAGGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAACTGACGTAATCTACCTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/test_run_data/reads_2.fq b/ariba/test_run_data/reads_2.fq
index fa54d4a..f468576 100644
--- a/ariba/test_run_data/reads_2.fq
+++ b/ariba/test_run_data/reads_2.fq
@@ -1,908 +1,2088 @@
- at presence_absence1:1:154:213/2
-TAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTC
+ at gene1:1:116:235/2
+TTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:2:64:123/2
-AATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:2:147:267/2
+TGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:3:21:79/2
-CTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:3:197:318/2
+CATGACTGACTGACTGACGATGACTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:4:116:174/2
-ATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:4:162:281/2
+GTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:5:16:76/2
-CATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:5:92:212/2
+TATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:6:76:136/2
-TTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:6:178:296/2
+ACTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:7:120:180/2
-GAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:7:85:204/2
+CACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:8:69:129/2
-CGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:8:136:255/2
+TCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:9:31:91/2
-CGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:9:128:248/2
+AGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:10:76:135/2
-TTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:10:95:215/2
+TTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:11:173:233/2
-AGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:11:140:258/2
+ACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:12:37:99/2
-GGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:12:63:181/2
+ACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:13:131:190/2
-TATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:13:148:268/2
+GTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:14:94:153/2
-ATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:14:4:123/2
+TGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAGCTACAAGAAAGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:15:46:104/2
-ATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:15:160:280/2
+TAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:16:115:175/2
-CATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:16:51:170/2
+TCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:17:44:103/2
-TGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:17:174:295/2
+CTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:18:141:201/2
-TGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:18:9:129/2
+GGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAGCTACAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:19:149:210/2
-TCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:19:48:167/2
+TTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:20:63:124/2
-TAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:20:49:169/2
+CCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:21:60:122/2
-ATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:21:16:135/2
+TAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:22:111:169/2
-CACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:22:79:199/2
+AAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:23:90:150/2
-TCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:23:62:180/2
+CCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:24:56:114/2
-AATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:24:72:193/2
+TCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:25:21:80/2
-ACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:25:89:210/2
+TATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:26:59:118/2
-CGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:26:119:240/2
+GAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:27:19:77/2
-TCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:27:200:322/2
+ACTGCATGACTGACTGACTGACGATGACTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:28:125:186/2
-CACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:28:64:185/2
+TCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:29:31:89/2
-CGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:29:176:296/2
+ACTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:30:64:125/2
-CTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:30:84:205/2
+ACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:31:150:211/2
-ATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:31:43:162/2
+CCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:32:144:205/2
-AGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:32:7:127/2
+CTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAGCTACAAGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:33:59:119/2
-CCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:33:8:128/2
+GCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAGCTACAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:34:40:99/2
-GGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:34:92:212.dup.2/2
+TATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:35:105:165/2
-TCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:35:83:203/2
+ACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:36:114:174/2
-ATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:36:75:195/2
+CATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:37:82:142/2
-CCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:37:176:295/2
+CTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:38:75:137/2
-CTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:38:63:183/2
+GCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:39:67:129/2
-CGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:39:92:209/2
+ATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:40:34:93/2
-CGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:40:86:205/2
+ACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:41:163:222/2
-CAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:41:106:225/2
+AGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:42:42:102/2
-GTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:42:108:228/2
+TTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:43:148:207/2
-TAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:43:134:254/2
+CAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at presence_absence1:44:117:177/2
-ACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:44:47:166/2
+TATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:45:54:114/2
-TTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:45:17:137/2
+GTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:46:8:66/2
-GGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:46:7:125/2
+AATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAGCTACAAGAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:47:74:134/2
-GTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:47:102:222/2
+CTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:48:6:65/2
-GTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:48:63:183.dup.2/2
+GCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:49:131:189/2
-AAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:49:144:263/2
+TCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:50:179:238/2
-TGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:50:28:147/2
+CGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:51:60:121/2
-CTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:51:200:320/2
+TGCATGACTGACTGACTGACGATGACTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:52:117:176/2
-GAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:52:21:143/2
+AATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:53:161:222/2
-AATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:53:75:194/2
+ATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:54:99:157/2
-TCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:54:190:310/2
+ACTGACTGACGATGACTGACTGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:55:168:227/2
-CATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:55:170:290/2
+TGACTGTCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:56:7:67/2
-CGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:56:10:129/2
+GGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAACACTATGCCAAATACAGCTACAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:57:9:67/2
-CGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:57:165:284/2
+TCAGTAGTAGATGTCAGTGAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:58:163:221/2
-ATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:58:142:262/2
+CATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:59:31:93/2
-GCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:59:147:266/2
+GAGTCATGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:60:57:117/2
-GCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:60:131:251/2
+TGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:61:13:72/2
-GTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:61:141:260/2
+TGACGTCAGTGAAGCTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:62:19:79/2
-CGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:62:127:246/2
+CTTTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:63:153:215/2
-GATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:63:32:151/2
+CACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCATATGCCGCAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:64:116:173/2
-ATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:64:42:161/2
+CATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTTACTTCATGGGTCATCGCTTCGCGATCCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:65:18:76/2
-TGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:65:106:227/2
+TAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:66:155:215/2
-GATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:66:99:218/2
+GTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:67:84:143/2
-CTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:67:124:244/2
+TTCAGAGGATTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:68:62:120/2
-TTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:68:78:198/2
+AACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:69:165:223/2
-GAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene1:69:116:235.dup.2/2
+TTTAATCTTAAGTCTGGGTTTTCTATATCCACACCGAAACCATCTGCACTTCGCACCTAGGTATGTCCTTATTCCATGCTTTCCCACGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:70:1:62/2
-CTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGATTCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:70:147:267/2
+CGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:71:25:86/2
-CTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:71:171:291/2
+AGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:72:120:180/2
-CTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:72:188:306/2
+ACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:73:164:222/2
-AATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:73:176:295/2
+CGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:74:149:210/2
-TGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:74:29:149/2
+GGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:75:173:233/2
-CCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:75:152:270/2
+GCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:76:179:238.dup.2/2
-TGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:76:111:230/2
+TGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:77:62:122/2
-TCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:77:12:131/2
+GGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:78:76:136/2
-CGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:78:8:126/2
+GCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:79:12:72/2
-GTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:79:205:327/2
+TCCTTCCTCTGCTGCGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:80:107:167/2
-GTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:80:75:194/2
+AATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:81:55:113/2
-TCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:81:190:309/2
+CGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:82:35:95/2
-GCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:82:69:189/2
+CGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:83:168:228/2
-CCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:83:43:161/2
+TTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:84:180:240/2
-CTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:84:7:125/2
+CGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:85:97:157/2
-TCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:85:85:205/2
+AGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:86:119:177/2
-AGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:86:2:121/2
+GTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGATTCCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only1:87:157:216/2
-TGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:87:139:259/2
+TTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:88:40:101/2
-GTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:88:44:163/2
+CTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:89:42:101/2
-GTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:89:80:201/2
+GCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:90:14:75/2
-AATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:90:98:217/2
+TAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:91:47:106/2
-CAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:91:116:235/2
+GATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:92:9:67/2
-TCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGACCACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:92:80:199/2
+TGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:93:56:116/2
-TTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:93:123:243/2
+GAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:94:18:78/2
-GGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:94:97:216/2
+AAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:95:47:106.dup.2/2
-CAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:95:12:131.dup.2/2
+GGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:96:38:97/2
-TCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:96:44:165/2
+GGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:97:144:203/2
-GTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:97:189:307/2
+TACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:98:31:90/2
-GTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:98:144:263/2
+CGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:99:147:206/2
-GCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:99:78:196/2
+GAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:100:11:71/2
-TTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:100:114:235/2
+GATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:101:8:69/2
-TTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGACCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:101:39:159/2
+ATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:102:45:106/2
-CAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:102:76:195/2
+AAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:103:83:142/2
-AATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:103:104:224/2
+CTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:104:124:183/2
-GGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:104:11:130/2
+GTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:105:32:91/2
-TGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:105:92:212/2
+TGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:106:12:72/2
-TTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:106:174:293/2
+TCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:107:156:214/2
-TATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:107:181:302/2
+ACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:108:85:145/2
-TTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:108:35:157/2
+TCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:109:84:145/2
-TTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:109:14:135/2
+GTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:110:60:117/2
-TTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:110:32:153/2
+TCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:111:131:191/2
-TAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:111:152:270.dup.2/2
+GCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:112:23:84/2
-ATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:112:187:306/2
+ACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:113:125:186/2
-GGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:113:105:225/2
+GCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:114:160:220/2
-CTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:114:185:305/2
+CGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:115:148:207/2
-GGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:115:206:325/2
+CTTCCTCTGCTGCGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:116:126:186/2
-GGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:116:12:134/2
+TTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:117:155:214/2
-TATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:117:156:274/2
+TAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:118:79:138/2
-CGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:118:123:243.dup.2/2
+GAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:119:158:216/2
-TGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:119:197:316/2
+CTGCGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:120:139:199/2
-GTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:120:109:230/2
+TGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:121:55:114/2
-TTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:121:4:124/2
+GCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACTTGAGATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:122:153:213/2
-ATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:122:117:237/2
+CTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:123:20:79/2
-AGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:123:199:317/2
+GCTGCGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:124:154:215/2
-GTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:124:37:156/2
+CGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:125:178:235/2
-AACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:125:205:323/2
+TCCTCTGCTGCGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:126:150:210/2
-AAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:126:87:206/2
+TAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:127:16:76/2
-TAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:127:174:293.dup.2/2
+TCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:128:6:65/2
-GCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGACCACGGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:128:205:324/2
+TTCCTCTGCTGCGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:129:15:75/2
-AATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:129:195:313/2
+CGTACGTACGTACGTCGTCGTCAGTCGTCGTCGTAGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at variants_only2:130:116:175/2
-GGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:130:161:279/2
+AGATGTAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:131:204:263/2
-CAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:131:16:136/2
+CGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:132:64:123/2
-GGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:132:145:265/2
+ATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:133:104:164/2
-CGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:133:74:193/2
+ATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:134:131:188/2
-TGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:134:12:131.dup.3/2
+GGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCTAATCAGCATAGATCAGCACGAAGTAATCCTGCTAGCACT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:135:65:126/2
-GTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:135:93:213/2
+GTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:136:152:213/2
-GATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:136:126:246/2
+ATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTGCGGAACATCTGGTAACGCGGGCTTTATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:137:73:133/2
-TTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:137:51:170/2
+ACGCGGGCTTTATTCGGTCGCGGTGCTATCTTCGCGTTCGGTCAGCGCGGTGCACGCGCGTTCGCTGCTTTCGGTGGTGTTTTCGGTGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:138:35:94/2
-TAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only1:138:154:274/2
+TAGCGCTCGATCGACTTGGTTCCAAGCCATCGAATGGCTGATACTGGACGCTTCAGCTAAAGTGAAAGTAGCAGCTGAGAAATGACGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:139:142:202/2
-ATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:139:141:261/2
+TCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:140:196:256/2
-TTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:140:155:276/2
+ACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:141:198:255/2
-TCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:141:125:243/2
+GCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:142:27:86/2
-TATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:142:128:248/2
+AAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:143:153:212/2
-ATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:143:35:154/2
+TCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:144:1:59/2
-CGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCGAAAAGTGTAAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:144:83:202/2
+GGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:145:89:149/2
-AAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:145:150:270/2
+TTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:146:178:237/2
-CAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:146:161:280/2
+GCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:147:67:126/2
-GTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:147:11:132/2
+CGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:148:17:77/2
-GGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:148:36:155/2
+TTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:149:64:124/2
-GGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:149:127:247/2
+AAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:150:116:174/2
-TGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:150:199:319/2
+ACTCTCACACCAAACTTTTTTCGTCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:151:147:205/2
-CGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:151:29:150/2
+AATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:152:95:155/2
-TTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:152:93:212/2
+TTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:153:176:235/2
-GACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:153:56:176/2
+ATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:154:202:262/2
-AAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:154:20:140/2
+CAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:155:176:236/2
-AGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:155:83:203/2
+GGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:156:94:154/2
-TCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:156:37:157/2
+GCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:157:71:128/2
-TCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:157:106:226/2
+GCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:158:200:259/2
-CATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:158:189:307/2
+AACTTTTTTCGTCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:159:102:162/2
-GATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:159:11:131/2
+GCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:160:142:199/2
-CGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:160:177:296/2
+TCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:161:195:254/2
-CCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:161:69:191/2
+CCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:162:73:133.dup.2/2
-TTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:162:14:133/2
+TCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:163:117:175/2
-GTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:163:18:139/2
+AGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:164:49:109/2
-CCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:164:128:247/2
+AAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:165:80:138/2
-CGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:165:99:218/2
+TACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:166:177:235/2
-GACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:166:34:153/2
+CATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:167:71:131/2
-CGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:167:158:277/2
+CACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:168:56:116/2
-GGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:168:83:205/2
+GGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:169:171:230/2
-TCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:169:50:170/2
+TTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:170:134:194/2
-TCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:170:172:292/2
+AATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:171:26:86/2
-TATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:171:194:314/2
+CACACCAAACTTTTTTCGTCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:172:182:241/2
-GATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:172:169:289/2
+GGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:173:80:141/2
-CACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:173:16:136/2
+TTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:174:208:267/2
-CTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:174:133:253/2
+CTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:175:30:91/2
-TGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:175:158:276/2
+ACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:176:206:266/2
-TAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:176:167:287/2
+GGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:177:81:139/2
-CCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:177:108:227/2
+GGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding1:178:10:67/2
-TCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCGAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:178:134:254/2
+ACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:179:199:258/2
-ATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:179:60:180/2
+ACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:180:35:94/2
-CTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:180:129:248/2
+AAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:181:186:244/2
-AGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:181:17:137/2
+TTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:182:43:100/2
-GAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:182:18:139.dup.2/2
+AGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:183:75:135/2
-CGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:183:4:124/2
+ATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGGTGACCACGGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:184:57:117/2
-TATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:184:15:135/2
+TTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGCTTCGCGAAACATGTAGAACGTCAACACTTGGCGGGAGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:185:122:181/2
-CAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:185:66:187/2
+TTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:186:186:245/2
-GAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:186:56:176.dup.2/2
+ATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:187:99:158/2
-CTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:187:92:211/2
+TAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:188:57:115/2
-TCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:188:152:272/2
+CATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:189:136:196/2
-ACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:189:134:254.dup.2/2
+ACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:190:23:81/2
-AGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:190:98:218/2
+TACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:191:97:156/2
-TAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:191:69:187/2
+TTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:192:58:118/2
-GTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:192:156:275/2
+CCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:193:156:214/2
-AGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:193:164:283/2
+CTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:194:157:215/2
-CAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:194:146:266/2
+CGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:195:11:71/2
-CAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:195:155:276.dup.2/2
+ACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:196:164:226/2
-TTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:196:83:202.dup.2/2
+GGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:197:60:119/2
-TGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:197:191:311/2
+ACCAAACTTTTTTCGTCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:198:152:212/2
-TAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:198:71:192/2
+ACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:199:200:260/2
-CGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:199:193:313/2
+ACACCAAACTTTTTTCGTCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:200:167:225/2
-TCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:200:91:211/2
+TAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:201:24:86/2
-TTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:201:200:320/2
+GACTCTCACACCAAACTTTTTTCGTCACAATGGGGGCCTTGCGCACCCCATTAGCGCGGTCGTAGAACTGGTAAAAAGCCCTTTTGTATC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:202:144:203/2
-GGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:202:105:223/2
+GTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:203:41:101/2
-GGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:203:69:189/2
+ATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:204:189:249/2
-TGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:204:143:263/2
+GGTCGTAGAACTGGTAAAAAGCCCTTTTGTATCAAGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:205:29:89/2
-GATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:205:111:229/2
+AGGGCAGTGGGTACATTTTAATGGGGGGGGAGTTGGTACCATTTAATAAACTAATATGCTTGATTTTAATGCGCTTCATAATGATCGTTC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:206:194:253/2
-GCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene.var_only2:206:55:173/2
+TGCTTGATTTTAATGCGCTTCATAATGATCGTTCAGTTTTTCGCTCGCAATGGTGGTCGCCATGTTTTCATGGCAGGTAATTTTTTTCGC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:207:140:199/2
-CATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:207:211:330/2
+GATAATGGATGATAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:208:168:227/2
-TTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:208:148:267/2
+AATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:209:89:148/2
-GGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:209:227:346/2
+GCGTGAGCCAAGGTTAGATAATGGATGATAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:210:193:252/2
-CCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:210:131:253/2
+CTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCAT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:211:166:224/2
-CTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:211:95:213/2
+CGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:212:150:209/2
-ACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACAT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:212:167:286/2
+TAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:213:197:256/2
-AGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:213:7:126/2
+TAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCGAAAA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:214:36:97/2
-GAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:214:119:239/2
+ATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:215:47:107/2
-CGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:215:64:183/2
+GGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:216:165:224/2
-CTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:216:4:123/2
+GGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCGAAAAGTG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:217:150:208/2
-CAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATT
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:217:62:182/2
+GATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:218:26:87/2
-TTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:218:45:165/2
+ATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:219:43:102/2
-GGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:219:81:202/2
+TTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:220:161:221/2
-CCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:220:196:315/2
+TTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:221:129:189/2
-CAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:221:35:153/2
+TTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:222:185:244/2
-AGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATAC
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:222:133:254/2
+ACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:223:8:68/2
-TCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAGA
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:223:177:294/2
+GCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:224:183:242/2
-TAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:224:224:342/2
+GAGCCAAGGTTAGATAATGGATGATAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:225:100:159/2
-TCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:225:4:125/2
+AGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCGAAAAG
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding2:226:100:159.dup.2/2
-TCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:226:54:172/2
+CCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at noncoding3/2
-CATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAG
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:227:43:162/2
+TCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTAC
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:228:13:130/2
+GCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:229:134:252/2
+TCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:230:11:131/2
+TGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:231:24:142/2
+GCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:232:145:264/2
+ACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:233:35:154/2
+GTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:234:106:225/2
+CGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:235:167:286.dup.2/2
+TAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:236:80:201/2
+TGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:237:100:219/2
+CGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:238:144:262/2
+AGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:239:61:180/2
+TGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:240:14:135/2
+GCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:241:190:309/2
+GTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:242:22:142/2
+GCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:243:226:346/2
+GCGTGAGCCAAGGTTAGATAATGGATGATAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:244:49:168/2
+AGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:245:174:293/2
+CAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:246:37:155/2
+AGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:247:65:184/2
+CGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:248:84:203/2
+TTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:249:62:181/2
+ATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:250:12:130/2
+GCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:251:121:241/2
+TCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:252:105:225/2
+CGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:253:149:269/2
+CGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:254:163:282/2
+AAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:255:186:303/2
+CGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:256:118:238/2
+TGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:257:137:255/2
+GACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:258:136:256/2
+AGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:259:126:243/2
+CCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:260:172:293/2
+CAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:261:66:185/2
+TCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:262:173:294/2
+GCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:263:230:348/2
+TGGCGTGAGCCAAGGTTAGATAATGGATGATAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:264:195:316/2
+GTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:265:172:291/2
+AGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:266:148:268/2
+GAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:267:65:184.dup.2/2
+CGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:268:2:120/2
+CAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGATTCGAAAAGTGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:269:195:316.dup.2/2
+GTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:270:197:316/2
+GTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:271:69:189/2
+GATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:272:35:155/2
+AGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:273:47:167/2
+GCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:274:201:318/2
+TAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:275:158:276/2
+TTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGCGAGATTAATTCGAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:276:14:134/2
+CACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGGAGTACATGTCACCACCCGCGTACGAGGTTGGGCGACTGAAGATAACCCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:277:104:224/2
+GAATCCGAAGTCGGTCTGTTCTTTGCTATGTGGGTGATCTCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:278:65:185/2
+TCGGATGGCGTTCCCTAAGCATCTCACCGCAGTTCGTTCGTGGGCGGCGGGCACTGCCTTAGGGACAAACTTAGTGATGTATGGGAGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding1:279:205:325/2
+TGGATGATAGTTTGCGGTCCGCCGCCCGATTGCAAGACCTAGCAAACATTTCCCGTCGAATACAGATCCAGACTCTCGCCTGCCTCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:280:21:141/2
+TTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:281:11:131/2
+AGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:282:47:165/2
+GTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:283:213:333/2
+TGTTGCAGTGAAGCCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:284:82:202/2
+ACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:285:151:272/2
+CCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:286:161:279/2
+GATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:287:117:235/2
+CAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:288:20:138/2
+GTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:289:216:336/2
+ACATGTTGCAGTGAAGCCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:290:9:129/2
+CGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:291:199:319/2
+CGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:292:46:165/2
+GTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:293:29:150/2
+AACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:294:131:248/2
+GTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:295:122:242/2
+ACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:296:20:139/2
+TGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:297:193:311/2
+CTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:298:166:284/2
+TCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:299:135:255/2
+CGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:300:147:265/2
+GAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:301:189:310/2
+TTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:302:86:208/2
+AATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:303:199:320/2
+CCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:304:40:161/2
+ACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:305:200:321/2
+GCCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:306:51:171/2
+CCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:307:113:233/2
+GTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:308:184:302/2
+CCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:309:56:174/2
+GAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:310:227:346/2
+ATCATTTGACACATGTTGCAGTGAAGCCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:311:64:183/2
+ACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:312:126:246/2
+TTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:313:75:195/2
+GAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:314:128:246/2
+TTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:315:160:279/2
+GATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:316:49:169/2
+CGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:317:108:226/2
+ATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:318:86:206/2
+TTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:319:226:345/2
+TCATTTGACACATGTTGCAGTGAAGCCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:320:148:267/2
+AAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:321:146:268/2
+GAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:322:170:289/2
+CCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:323:118:239/2
+GGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:324:86:205/2
+TGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:325:158:277/2
+TAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:326:177:298/2
+GGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:327:185:306/2
+ATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:328:72:192/2
+CGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:329:11:130/2
+GCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:330:23:143/2
+GATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:331:159:278/2
+ATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:332:191:310/2
+TTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:333:92:211/2
+GACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:334:5:123/2
+TGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAGATAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:335:6:125/2
+CTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAGATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:336:177:296/2
+TCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:337:94:213/2
+GAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:338:7:128/2
+GCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:339:199:317/2
+CCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:340:3:124/2
+TTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAGATAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:341:35:155/2
+CGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:342:69:188/2
+CGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:343:184:305/2
+TCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:344:105:225/2
+TTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:345:102:221/2
+TCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:346:18:135/2
+TCGCAGCGCGCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:347:201:321/2
+GCCGCCAGCGCTTGAATCGCCCCGGTCAAGCGCCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:348:128:248/2
+GTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:349:100:219/2
+CATACAGAGACAATTGCACAAAACGAACGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:350:72:192.dup.2/2
+CGGACGCATACATTCTTAGAACCCGGCGTGAACTGTCCGCTAAACTTGGGATTTGTATCGCAGCGCGCTTGGGAAGAACTTAAGATTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:351:6:126/2
+GCTTGGGAAGAACTTAAGATTTGCAAGCCGCGATACAGTCGTGAACAGTTAAAGATCTATGAGAGTCAACGCTCCGGAACAGGGCAGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding2:352:170:289.dup.2/2
+CCCCCTCCCCGATAGCGCCATGAAGAGTAGAGAGCGTTTATGTTTCTACCGGTCCAGTAGACAATTGGTCCATACAGAGACAATTGCACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:353:8:127/2
+GATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGATGTCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:354:17:136/2
+TCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:355:22:141/2
+GATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:356:61:183/2
+CACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:357:85:204/2
+CGCGTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:358:89:209/2
+CTTGGCGCGTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:359:53:174/2
+GACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:360:22:143/2
+CAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:361:8:127.dup.2/2
+GATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGATGTCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:362:20:139/2
+TGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:363:21:140/2
+ATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:364:37:155/2
+CCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:365:53:172/2
+CACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:366:84:202/2
+CGTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:367:43:162/2
+GGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:368:67:186/2
+TGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:369:33:154/2
+CGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:370:85:204.dup.2/2
+CGCGTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:371:11:129/2
+ATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGATGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:372:52:172/2
+CACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:373:15:135/2
+CGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:374:85:205/2
+GCGCGTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:375:16:137/2
+ATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:376:60:179/2
+AGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:377:71:191/2
+AAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:378:44:164/2
+GAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:379:82:201/2
+GTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:380:10:129/2
+ATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGATGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:381:61:181/2
+CCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:382:66:184/2
+ACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:383:77:197/2
+TAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:384:84:203/2
+GCGTCTTAAGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:385:65:186/2
+TGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:386:43:164/2
+GAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:387:19:138/2
+GATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:388:66:186/2
+TGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:389:74:194/2
+GTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:390:67:187/2
+CTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:391:31:149/2
+TCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:392:1:120/2
+TGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGATGTCGACAGGATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:393:11:133/2
+ATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:394:68:188/2
+GCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:395:68:188.dup.2/2
+GCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:396:6:126/2
+ATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGATGTCGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:397:23:142/2
+AGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:398:22:141.dup.2/2
+GATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:399:51:171/2
+ACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:400:76:195/2
+AGTCAAAGCTGACACCAGCCAGACACGAACGGAGGTCGTCCCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:401:15:134/2
+GATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTCGATCGATCGATCGAGATATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding3:402:34:155/2
+CCGTCATCAGATCAGATGATCGATCGATGATATGATGAGTATGATGATGATGAGTCAGTACGTGAGATTCAGTCAGTCAGTCAGTCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:403:3:122/2
+CCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:404:67:187/2
+GCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:405:150:270/2
+CGGCACCCCTGTTACCCTCATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:406:43:161/2
+CGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:407:85:205/2
+CTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:408:92:211/2
+TTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:409:119:239/2
+CGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:410:69:188/2
+TGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:411:103:224/2
+TGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:412:23:144/2
+CTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:413:2:120/2
+TGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATGATACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:414:23:144.dup.2/2
+CTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:415:147:265/2
+CCCCTGTTACCCTCATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:416:99:219/2
+GCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:417:21:142/2
+CGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:418:124:244/2
+ACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:419:54:173/2
+CTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:420:19:140/2
+TCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:421:103:223/2
+GGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:422:30:152/2
+GTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:423:151:270/2
+CGGCACCCCTGTTACCCTCATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:424:37:156/2
+GGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:425:1:119/2
+GACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATGATACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:426:124:244.dup.2/2
+ACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:427:121:240/2
+GCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:428:96:216/2
+AAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:429:53:174/2
+TCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:430:41:160/2
+GTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:431:56:175/2
+CTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:432:18:136/2
+TACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:433:22:141/2
+GTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:434:87:205/2
+CTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:435:7:126/2
+CTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:436:48:168/2
+GTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:437:47:168/2
+GTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:438:49:168/2
+GTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:439:144:263/2
+CCTGTTACCCTCATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:440:90:211/2
+TTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:441:66:185/2
+GTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:442:45:166/2
+CATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:443:68:185/2
+GTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:444:76:193/2
+GCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:445:62:181/2
+CGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:446:117:236/2
+TAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:447:3:121/2
+CTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATGATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:448:25:144/2
+CTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:449:132:252/2
+CATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:450:44:165/2
+ATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:451:122:243/2
+CCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:452:124:242/2
+CAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:453:93:212/2
+GTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:454:7:126.dup.2/2
+CTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:455:99:218/2
+CTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:456:104:223/2
+GGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:457:136:254/2
+CTCATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:458:120:240/2
+GCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:459:151:271/2
+GCGGCACCCCTGTTACCCTCATCGTTGACCAGCGTTAGGACGTTGCTTGGTCGCTAAATGTTTTTTCTCCTTCTCTCTGCGTCTGCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:460:18:136.dup.2/2
+TACACGGCTTCTCTCCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:461:2:122/2
+CCTGACTCGCAGTGAGATGATGCATGCATAGCCTCCTCTCTCTCTGCTCGTGACTGACTACGACGACGTACGTACGATGATCGATGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only1:462:90:210/2
+TTTTTCTCCTTCTCTCTGCGTCTGCGTCGCGCTCTCTCTCTCGTCATGACGTTAGGATGTTTTGCGCTCGTCGCTACACGGCTTCTCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:463:68:190/2
+GCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:464:2:122/2
+GATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:465:14:135/2
+TAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:466:138:257/2
+AAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:467:110:230/2
+GGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:468:2:122.dup.2/2
+GATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:469:56:174/2
+ATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:470:151:270/2
+ATAGATGAGTGCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:471:33:150/2
+TGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:472:121:242/2
+GCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:473:1:122/2
+GATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:474:12:132/2
+TAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:475:3:124/2
+CAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:476:16:136/2
+ATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:477:149:269/2
+TAGATGAGTGCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:478:29:149/2
+GTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:479:4:123/2
+AGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:480:148:266/2
+ATGAGTGCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:481:36:156/2
+GTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:482:8:129/2
+TCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:483:20:139/2
+TATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:484:130:247/2
+AGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:485:104:224/2
+TTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:486:16:135/2
+TAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:487:88:206/2
+CGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:488:58:178/2
+TATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:489:123:243/2
+CGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:490:122:243/2
+CGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:491:116:235/2
+ACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:492:141:260/2
+GCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:493:138:258/2
+CAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:494:148:268/2
+AGATGAGTGCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:495:127:246/2
+GTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:496:23:144/2
+GATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:497:2:120/2
+TGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:498:144:263/2
+AGTGCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:499:11:133/2
+ATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:500:132:252/2
+CATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:501:58:178.dup.2/2
+TATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:502:149:269.dup.2/2
+TAGATGAGTGCCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:503:2:123/2
+AGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:504:121:240/2
+AGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:505:1:121/2
+ATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:506:107:226/2
+TTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:507:6:125/2
+TCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:508:35:155/2
+TCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:509:87:206/2
+CGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:510:139:259/2
+CCAAAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:511:94:214/2
+TAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:512:108:227/2
+TTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:513:30:149/2
+GTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:514:137:256/2
+AAACCATGCAGTTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:515:5:125/2
+TCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:516:114:234/2
+CAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:517:47:168/2
+ATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:518:76:197/2
+TGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTCAGTCAGATGATCGATCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:519:4:123.dup.2/2
+AGATGATCGATCGATCAGGTAGATTACGTCAGTTTGCTGCTGTCTCCTACGTACGTACGTACGTACGACGCTGGTCCGTCGTTCGTGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:520:125:245/2
+TTCGCAGCTGACAGCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:521:99:217/2
+CTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGATATTATATAATAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at noncoding.var_only2:522:110:232/2
+GCGGGTTTTTGGCCCCTATAACAGTACGTACGTCATGCTGCTGCTCGTAGTATATATAATTAATATATAGTATGCAGTCAGTTGTCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/test_run_data/ref_fasta_to_make_reads_from.fa b/ariba/test_run_data/ref_fasta_to_make_reads_from.fa
index 7ec1baa..1bf715b 100644
--- a/ariba/test_run_data/ref_fasta_to_make_reads_from.fa
+++ b/ariba/test_run_data/ref_fasta_to_make_reads_from.fa
@@ -1,36 +1,62 @@
->presence_absence1
+>gene1
+TACGTAGTCAGTCATCATCATCATCGTCATGCAGTCATCTGACTGAGTACTTCATCATTA
TTAAGCTGCCTAACCCTATAACGTTCAGCACTCTAAACCGCGCCTAAACAGGTACACTTC
TTCCTTTCTTGTAGCTGTATTTGGCATAGTGTTGCGGCATATGGATCGCGAAGCGATGAC
CCATGAAGTAACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTG
GGAAAGCATGGAATAAGGACATACCTAGGTGCGAAGTGCAGATGGTTTCGGTGTGGATAT
-AGAAAACCCAGACTTAAGATTAAATCCTCTGAAAGCTTCACTGACGTCATGACTCA
->variants_only1
+AGAAAACCCAGACTTAAGATTAAATCCTCTGAAAGCTTCACTGACGTCATGACTCACTGA
+CATCTACTACTGACAGTCAGTCAGTCATCGTCAGTCAGTCAGTCATGCAGTGTATA
+>gene.var_only1
+CTACTGACGTCAGTCAGTCAGTCAGAGAGAGAGAGAGAGCCTCTCATCATCTACTGACTA
TAAGTAAATCAGAGTAGCTTCGCGCCTCAGGGTTGTTCTCAGTTCTACTGATAAGCGGTA
GGGAATCTCAAGTGCTAGCAGGATTACTTCGTGCTGATCTATGCTGATTAGCACCGAAAA
CACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACCGAACGCGAAGATAGCACCGC
GACCGAATAAAGCCCGCGTTACCAGATGTTCCGCACCGTCATTTCTCAGCTGCTACTTTC
-ACTTTAGCTGAAGCGTCCAGTATCAGCCATTCGATGGCTTGGAACCAAGT
->variants_only2
+ACTTTAGCTGAAGCGTCCAGTATCAGCCATTCGATGGCTTGGAACCAAGTCGATCGAGCG
+CTACATCTACGACGACGACTGACGACGACGTACGTACGTACGCAGCAGAGGAAGGAA
+>gene.var_only2
+AGGAGAGATAGAAGAGGTGGTTCGCACGTCAGTCGCTCCCGCTTGCTTATCGCGACGTGC
ATGCGCAGGCCCGGTTAAGAGGTGCTACGGGAACTCCTCCATGCTATTAGAGAACGGCCC
TTTCGCCGTGGTCACCTCCCGCCAAGTGTTGACGTTCTACATGTTTCGCGAAGCGAAAAA
AATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGCGAAAAACTGAACGATCATTA
TGAAGCGCATTAAAATCAAGCATATTAGTTTATTAAATGGTACCAACTCCCCCCCCATTA
-AAATGTACCCACTGCCCTTGATACAAAAGGGCTTTTTACCAGTTCTACGACCG
+AAATGTACCCACTGCCCTTGATACAAAAGGGCTTTTTACCAGTTCTACGACCGCGCTAAT
+GGGGTGCGCAAGGCCCCCATTGTGACGAAAAAAGTTTGGTGTGAGAGTCTAGT
>noncoding1
+GACAAAAGCTCTTGGTCCAATCTTTTTGAGGGATGTCTCATCGATGTAGATGGACGCGTT
ATGTGGTGTGTCCGTCTGACTTAGCTGGGTACTTTAGGGAGAATCCTCTCAGTGTTACCT
TACACTTTTCGAATCAGGGTTATCTTCAGTCGCCCAACCTCGTACGCGGGTGGTGACATG
TACTCCACTCCCATACATCACTAAGTTTGTCCCTAAGGCAGTGCCCGCCGCCCACGAACG
AACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCACCCACATAGCAAAGAACAGAC
CGACTTCGGATTCGAATTAATCTCGCATGAGGCAGGCGAGAGTCTGGATCTGTATTCGAC
-GGGAAATGTTTGCTAGGTCT
+GGGAAATGTTTGCTAGGTCTTGCAATCGGGCGGCGGACCGCAAACTATCATCCATTATCT
+AACCTTGGCTCACGCCATAA
>noncoding2
+CTTGACCGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAACATGTGTCAAATGATATATG
CGACTACACAAGGTACCGGGCCCACGGCACATTTGGACATCGAATACACTAGCGGTATTT
ATGCTTATCTGCCCTGTTCCGGAGCGTTGACTCTCATAGATCTTTAACTGTTCACGACTG
TATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCTGCGATACAAATCCCAAGTTT
AGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCCGTTCGTTTTGTGCAATTGTC
TCTGTATGGACCAATTGTCTACTGGACCGGTAGAAACATAAACGCTCTCTACTCTTCATG
-GCGCTATCGGGGAGGGGGCG
+GCGCTATCGGGGAGGGGGCGCTTGACCGGGGCGATTCAAGCGCTGGCGGCTTCACTGCAA
+CATGTGTCAAATGATATATG
>noncoding3
+GGACAACCTGCATCATACTTGACCTACCTCCTCTCAGATGACGATATGCTCGAAATCGCG
CTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGAT
CATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACTGAATCT
CACGTACTGACTCATCATCATCATACTCATCATATCATCGATCGATCATCTGATCTGATG
+ACGGGACGACCTCCGTTCGTGTCTGGCTGGTGTCAGCTTTGACTTAAGACGCGCCAAGCC
+>noncoding.var_only1
+CTTGGGGTTCCTGTACTAAAATCACTACGAAAGAGCAACCGTCCCGTTTCAGAGCTAAGG
+CGTATCGACGTACTGACGTCGTATGCGTCGTCGACGTGTCCAGGCGCGCCGCGCGCCCCC
+CGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGG
+CTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAGCGCAAAA
+CATCCTAACGTCATGACGAGAGAGAGAGCGCGACGCAGACGCAGAGAGAAGGAGAAAAAA
+CATTTAGCGACCAAGCAACGTCCTAACGCTGGTCAACGATGAGGGTAACAGGGGTGCCGC
+>noncoding.var_only2
+TGCTAGTTCTCAGTACGACGCATCACCGGGCCAGGCCACACTTTCGTCGGATCACTTTGT
+CTATCCATCTACTGACTGATCGATCGATCATCGTACTGACTGACTGATCGATCGTACTGA
+GGTGTCACGAACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAA
+CTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGACAA
+CTGACTGCATACTATATATTAATTATATATACTACGAGCAGCAGCATGACGTACGTACTG
+TTATAGGGGCCAAAAACCCGCTGTCAGCTGCGAACTGCATGGTTTTGGCACTCATCTATG
diff --git a/ariba/test_run_data/ref_seqs.fa b/ariba/test_run_data/ref_seqs.fa
new file mode 100644
index 0000000..8251d0a
--- /dev/null
+++ b/ariba/test_run_data/ref_seqs.fa
@@ -0,0 +1,27 @@
+>gene1
+ATGGATCGCGAAGCGATGACCCATGAAGCAACCGAACGCGCGAGCACCAACATTAGCCAT
+ATTAACGGCATTAGCGCGTGGGAAAGCATGATTTAA
+>gene2
+ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
+>gene.var_only1
+ATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACC
+GAACGCGAAGATAGCACCGCGACCGAATAA
+>gene.var_only2
+ATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGC
+GAAAAACTGAACGATCATTATGAAGCGCATTAA
+>noncoding1
+CGTACGCGGGTGGAGACATGTACTCCACTCCCATACATCCCTAAGTTTGTCCCTAAGGCA
+GTGCCCGCCGCCCACGAACGAACTGCGGTGAGATGCTTAGGGAACGCCATCCGAGATCAC
+>noncoding2
+TCTTTAACTGTTCACGACTGTATCGCGGCTTGCAAATCTTAAGTTCTTCCCAAGCGCGCT
+GCGATACAAATCCCAAGTTTAGCGGACAGTTCACGCCGGGTTCTAAGAATGTATGCGTCC
+>noncoding3
+CTAACTTACTACTATGACTGACTGACTGACTGACTGATCGACTGCTGACATCTGATCGAT
+CATCCTGTCGACATCATATCTCGATCGATCGATCGACTGACTGACTGACTGACTGAATCT
+CACGTACTGACTCATCATCATCATACTCATCATATCATCGATCGATCATCTGATCTGATG
+>noncoding.var_only1
+CGTATCATCGATCATCGTACGTACGTCGTCGTAGTCAGTCACGAGCAGAGAGAGAGGAGG
+CTATGCATGCATCATCTCACTGCGAGTCAGGAGAGAAGCCGTGTAGCGACGAGCGCAAAA
+>noncoding.var_only2
+GGTGTCACGTACGACGGACCAGCGTCGTACGTACGTACGTACGTAGGAGACAGCAGCAAA
+CTGACGTAATCTACCTGATCGATCGATCATCTGACTGACTATTATATAATATCGCGACAA
diff --git a/ariba/test_run_data/variants_only.fa b/ariba/test_run_data/variants_only.fa
deleted file mode 100644
index 2a3b01c..0000000
--- a/ariba/test_run_data/variants_only.fa
+++ /dev/null
@@ -1,6 +0,0 @@
->variants_only1
-ATGCTGATTAGCACCGAAAACACCACCGAAAGCAGCGAACGCGCGTGCACCGCGCTGACC
-GAACGCGAAGATAGCACCGCGACCGAATAA
->variants_only2
-ATGTTTCGCGAAGCGAAAAAAATTACCTGCCATGAAAACATGGCGACCACCATTGCGAGC
-GAAAAACTGAACGATCATTATGAAGCGCATTAA
diff --git a/ariba/tests/aln_to_metadata_test.py b/ariba/tests/aln_to_metadata_test.py
index 7f55dd3..d781842 100644
--- a/ariba/tests/aln_to_metadata_test.py
+++ b/ariba/tests/aln_to_metadata_test.py
@@ -1,7 +1,5 @@
import unittest
import os
-import copy
-import shutil
import filecmp
import pyfastaq
from ariba import aln_to_metadata, sequence_variant
@@ -77,7 +75,6 @@ class TestAlnToMetadata(unittest.TestCase):
def test_insertion_coords(self):
'''test _insertion_coords'''
- ivl = pyfastaq.intervals.Interval
tests = [
('acgt', []),
('-a', [pyfastaq.intervals.Interval(0, 0)]),
@@ -308,16 +305,16 @@ class TestAlnToMetadata(unittest.TestCase):
}
expected = [
- 'seq1\tp\tA2D\tid1\tdescription 1',
- 'seq2\tp\tA2D\tid1\tdescription 1',
- 'seq4\tp\tC3D\tid1\tdescription 1',
- 'seq5\tp\tA3D\tid1\tdescription 1',
- 'seq5\tp\tF2E\tid2\tdescription 2',
- 'seq3\tp\tF2E\tid2\tdescription 2',
- 'seq4\tp\tF2E\tid2\tdescription 2',
+ 'seq1\t1\t0\tA2D\tid1\tdescription 1',
+ 'seq2\t1\t0\tA2D\tid1\tdescription 1',
+ 'seq4\t1\t0\tC3D\tid1\tdescription 1',
+ 'seq5\t1\t0\tA3D\tid1\tdescription 1',
+ 'seq5\t1\t0\tF2E\tid2\tdescription 2',
+ 'seq3\t1\t0\tF2E\tid2\tdescription 2',
+ 'seq4\t1\t0\tF2E\tid2\tdescription 2',
]
- got = aln_to_metadata.AlnToMetadata._variants_to_tsv_lines(variants, unpadded_seqs, padded_seqs, insertions, True)
+ got = aln_to_metadata.AlnToMetadata._variants_to_tsv_lines(variants, unpadded_seqs, padded_seqs, insertions, True, False)
self.assertEqual(expected, got)
@@ -332,7 +329,6 @@ class TestAlnToMetadata(unittest.TestCase):
}
unpadded_seqs = aln_to_metadata.AlnToMetadata._make_unpadded_seqs(padded_seqs)
- unpadded_aa_seqs = {x: unpadded_seqs[x].translate() for x in unpadded_seqs}
insertions = aln_to_metadata.AlnToMetadata._make_unpadded_insertion_coords(padded_seqs)
variant1 = sequence_variant.Variant('n', 'C5T', 'id1')
@@ -343,16 +339,16 @@ class TestAlnToMetadata(unittest.TestCase):
}
expected = [
- 'seq1\tn\tC5T\tid1\tdescription 1',
- 'seq2\tn\tC5T\tid1\tdescription 1',
- 'seq4\tn\tG8T\tid1\tdescription 1',
- 'seq5\tn\tA8T\tid1\tdescription 1',
- 'seq5\tn\tA5T\tid2\tdescription 2',
- 'seq3\tn\tA5T\tid2\tdescription 2',
- 'seq4\tn\tG5T\tid2\tdescription 2',
+ 'seq1\t0\t1\tC5T\tid1\tdescription 1',
+ 'seq2\t0\t1\tC5T\tid1\tdescription 1',
+ 'seq4\t0\t1\tG8T\tid1\tdescription 1',
+ 'seq5\t0\t1\tA8T\tid1\tdescription 1',
+ 'seq5\t0\t1\tA5T\tid2\tdescription 2',
+ 'seq3\t0\t1\tA5T\tid2\tdescription 2',
+ 'seq4\t0\t1\tG5T\tid2\tdescription 2',
]
- got = aln_to_metadata.AlnToMetadata._variants_to_tsv_lines(variants, unpadded_seqs, padded_seqs, insertions, False)
+ got = aln_to_metadata.AlnToMetadata._variants_to_tsv_lines(variants, unpadded_seqs, padded_seqs, insertions, False, True)
self.assertEqual(expected, got)
@@ -365,11 +361,7 @@ class TestAlnToMetadata(unittest.TestCase):
}
tmpfile = 'tmp.aln_to_meta_test_make_cluster_file.out'
expected_file = os.path.join(data_dir, 'aln_to_metadata_make_cluster_file.out')
-
- with self.assertRaises(aln_to_metadata.Error):
- aln_to_metadata.AlnToMetadata._make_cluster_file('not_found', seqs, tmpfile)
-
- aln_to_metadata.AlnToMetadata._make_cluster_file('seq2', seqs, tmpfile)
+ aln_to_metadata.AlnToMetadata._make_cluster_file(seqs, tmpfile)
self.assertTrue(filecmp.cmp(expected_file, tmpfile, shallow=False))
os.unlink(tmpfile)
@@ -381,7 +373,7 @@ class TestAlnToMetadata(unittest.TestCase):
tsv_in = os.path.join(data_dir, 'aln_to_metadata_run_coding.in.tsv')
tsv_expected = os.path.join(data_dir, 'aln_to_metadata_run_coding.out.tsv')
cluster_expected = os.path.join(data_dir, 'aln_to_metadata_run_coding.out.cluster')
- a_to_m = aln_to_metadata.AlnToMetadata(fa_in, tsv_in, True, 'seq3')
+ a_to_m = aln_to_metadata.AlnToMetadata(fa_in, tsv_in, True, False, 'seq3')
outprefix = 'tmp.test.aln_to_metadata.run_coding'
a_to_m.run(outprefix)
self.assertTrue(filecmp.cmp(tsv_expected, outprefix + '.tsv', shallow=False))
@@ -399,7 +391,7 @@ class TestAlnToMetadata(unittest.TestCase):
tsv_in = os.path.join(data_dir, 'aln_to_metadata_run_noncoding.in.tsv')
tsv_expected = os.path.join(data_dir, 'aln_to_metadata_run_noncoding.out.tsv')
cluster_expected = os.path.join(data_dir, 'aln_to_metadata_run_noncoding.out.cluster')
- a_to_m = aln_to_metadata.AlnToMetadata(fa_in, tsv_in, False, 'seq2')
+ a_to_m = aln_to_metadata.AlnToMetadata(fa_in, tsv_in, False, True, 'seq2')
outprefix = 'tmp.test.aln_to_metadata.run_noncoding'
a_to_m.run(outprefix)
self.assertTrue(filecmp.cmp(tsv_expected, outprefix + '.tsv', shallow=False))
diff --git a/ariba/tests/assembly_compare_test.py b/ariba/tests/assembly_compare_test.py
index df4001a..8d386ab 100644
--- a/ariba/tests/assembly_compare_test.py
+++ b/ariba/tests/assembly_compare_test.py
@@ -1,10 +1,6 @@
import unittest
import os
-import copy
-import shutil
-import filecmp
import pyfastaq
-import pysam
import pymummer
from ariba import assembly_compare
@@ -328,13 +324,12 @@ class TestAssemblyCompare(unittest.TestCase):
}
got = assembly_compare.AssemblyCompare._get_gene_matching_ref(nucmer_hits, contigs, 10)
- expected = (pyfastaq.sequences.Fasta('contig.2-16', 'ATGAAATTTCCCTAG'), 'GENE_FOUND', 1, 2)
+ expected = ('contig', pyfastaq.sequences.Fasta('contig.2-16', 'ATGAAATTTCCCTAG'), 'GENE_FOUND', 1, 2)
self.assertEqual(expected, got)
def test_ref_covered_by_at_least_one_full_length_contig(self):
'''test _ref_covered_by_at_least_one_full_length_contig'''
- ref = pyfastaq.sequences.Fasta('gene', 'GATCGCGAAGCGATGACCCATGAAGCGACCGAACGCTGA')
hits = [
['1', '100', '1', '100', '100', '100', '100.00', '100', '100', '1', '1', 'ref', 'contig1'],
['1', '99', '1', '99', '99', '99', '100.00', '100', '100', '1', '1', 'ref', 'contig1'],
diff --git a/ariba/tests/assembly_test.py b/ariba/tests/assembly_test.py
index 129b80b..db85fb0 100644
--- a/ariba/tests/assembly_test.py
+++ b/ariba/tests/assembly_test.py
@@ -30,13 +30,81 @@ class TestAssembly(unittest.TestCase):
self.assertTrue(assembly.Assembly._check_spades_log_file(bad_file))
+ def test_run_fermilite(self):
+ '''test _run_fermilite'''
+ reads = os.path.join(data_dir, 'assembly_run_fermilite.reads.fq')
+ tmp_fa = 'tmp.test_run_fermilite.fa'
+ tmp_log = 'tmp.test_run_fermilite.log'
+ expected_fa = os.path.join(data_dir, 'assembly_run_fermilite.expected.fa')
+ expected_log = os.path.join(data_dir, 'assembly_run_fermilite.expected.log')
+ got = assembly.Assembly._run_fermilite(reads, tmp_fa, tmp_log)
+ self.assertEqual(0, got)
+ self.assertTrue(filecmp.cmp(expected_fa, tmp_fa, shallow=False))
+ self.assertTrue(filecmp.cmp(expected_log, tmp_log, shallow=False))
+ os.unlink(tmp_fa)
+ os.unlink(tmp_log)
+
+
+ def test_run_fermilite_fails(self):
+ '''test _run_fermilite when it fails'''
+ reads = os.path.join(data_dir, 'assembly_run_fermilite_fails.reads.fq')
+ tmp_fa = 'tmp.test_run_fermilite_fails.fa'
+ tmp_log = 'tmp.test_run_fermilite_fails.log'
+ expected_log = os.path.join(data_dir, 'assembly_run_fermilite_fails.expected.log')
+ got = assembly.Assembly._run_fermilite(reads, tmp_fa, tmp_log)
+ self.assertEqual(1, got)
+ self.assertFalse(os.path.exists(tmp_fa))
+ self.assertTrue(filecmp.cmp(expected_log, tmp_log, shallow=False))
+ os.unlink(tmp_log)
+
+
+ def test_assemble_with_fermilite(self):
+ '''test _assemble_with_fermilite'''
+ reads1 = os.path.join(data_dir, 'assembly_assemble_with_fermilite.reads_1.fq')
+ reads2 = os.path.join(data_dir, 'assembly_assemble_with_fermilite.reads_2.fq')
+ expected_log = os.path.join(data_dir, 'assembly_assemble_with_fermilite.expected.log')
+ expected_fa = os.path.join(data_dir, 'assembly_assemble_with_fermilite.expected.fa')
+ tmp_dir = 'tmp.test_assemble_with_fermilite'
+ tmp_log = 'tmp.test_assemble_with_fermilite.log'
+ tmp_log_fh = open(tmp_log, 'w')
+ print('First line', file=tmp_log_fh)
+ a = assembly.Assembly(reads1, reads2, 'not needed', 'not needed', tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', tmp_log_fh)
+ a._assemble_with_fermilite()
+ self.assertTrue(a.assembled_ok)
+ tmp_log_fh.close()
+ self.assertTrue(filecmp.cmp(expected_log, tmp_log, shallow=False))
+ self.assertTrue(filecmp.cmp(expected_fa, os.path.join(tmp_dir, 'contigs.fa'), shallow=False))
+ shutil.rmtree(tmp_dir)
+ os.unlink(tmp_log)
+
+
+ def test_assemble_with_fermilite_fails(self):
+ '''test _assemble_with_fermilite fails'''
+ reads1 = os.path.join(data_dir, 'assembly_assemble_with_fermilite_fails.reads_1.fq')
+ reads2 = os.path.join(data_dir, 'assembly_assemble_with_fermilite_fails.reads_2.fq')
+ expected_log = os.path.join(data_dir, 'assembly_assemble_with_fermilite_fails.expected.log')
+ tmp_dir = 'tmp.test_assemble_with_fermilite_fails'
+ tmp_log = 'tmp.test_assemble_with_fermilite_fails.log'
+ tmp_log_fh = open(tmp_log, 'w')
+ print('First line', file=tmp_log_fh)
+ a = assembly.Assembly(reads1, reads2, 'not needed', 'not needed', tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', tmp_log_fh)
+ a._assemble_with_fermilite()
+ self.assertFalse(a.assembled_ok)
+ tmp_log_fh.close()
+ self.assertTrue(filecmp.cmp(expected_log, tmp_log, shallow=False))
+ self.assertFalse(os.path.exists(os.path.join(tmp_dir, 'contigs.fa')))
+ shutil.rmtree(tmp_dir)
+ os.unlink(tmp_log)
+
+
def test_assemble_with_spades(self):
'''test _assemble_with_spades'''
+ return # but leave code here in case we decide to use spades later
reads1 = os.path.join(data_dir, 'assembly_test_assemble_with_spades_reads_1.fq')
reads2 = os.path.join(data_dir, 'assembly_test_assemble_with_spades_reads_2.fq')
ref_fasta = os.path.join(data_dir, 'assembly_test_assemble_with_spades_ref.fa')
tmp_dir = 'tmp.test_assemble_with_spades'
- a = assembly.Assembly(reads1, reads2, ref_fasta, tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
+ a = assembly.Assembly(reads1, reads2, 'not needed', ref_fasta, tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
a._assemble_with_spades(unittest=True)
self.assertTrue(a.assembled_ok)
shutil.rmtree(tmp_dir)
@@ -44,11 +112,12 @@ class TestAssembly(unittest.TestCase):
def test_assemble_with_spades_fail(self):
'''test _assemble_with_spades handles spades fail'''
+ return # but leave code here in case we decide to use spades later
reads1 = os.path.join(data_dir, 'assembly_test_assemble_with_spades_reads_1.fq')
reads2 = os.path.join(data_dir, 'assembly_test_assemble_with_spades_reads_2.fq')
ref_fasta = os.path.join(data_dir, 'assembly_test_assemble_with_spades_ref.fa')
tmp_dir = 'tmp.test_assemble_with_spades'
- a = assembly.Assembly(reads1, reads2, ref_fasta, tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
+ a = assembly.Assembly(reads1, reads2, 'not needed', ref_fasta, tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
a._assemble_with_spades(unittest=False)
self.assertFalse(a.assembled_ok)
shutil.rmtree(tmp_dir)
@@ -56,11 +125,12 @@ class TestAssembly(unittest.TestCase):
def test_scaffold_with_sspace(self):
'''test _scaffold_with_sspace'''
+ return # but leave code here in case we decide to use sspace later
reads1 = os.path.join(data_dir, 'assembly_test_assemble_with_spades_reads_1.fq')
reads2 = os.path.join(data_dir, 'assembly_test_assemble_with_spades_reads_2.fq')
ref_fasta = os.path.join(data_dir, 'assembly_test_assemble_with_spades_ref.fa')
tmp_dir = 'tmp.test_scaffold_with_sspace'
- a = assembly.Assembly(reads1, reads2, ref_fasta, tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
+ a = assembly.Assembly(reads1, reads2, 'not needed', ref_fasta, tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
a.assembly_contigs = os.path.join(data_dir, 'assembly_test_scaffold_with_sspace_contigs.fa')
a._scaffold_with_sspace()
self.assertTrue(os.path.exists(a.scaffolder_scaffolds))
@@ -69,6 +139,7 @@ class TestAssembly(unittest.TestCase):
def test_has_gaps_to_fill(self):
'''test _has_gaps_to_fill'''
+ return # but leave code here in case we decide to use gapfiller later
no_gaps = os.path.join(data_dir, 'assembly_test_has_gaps_to_fill.no_gaps.fa')
has_gaps = os.path.join(data_dir, 'assembly_test_has_gaps_to_fill.has_gaps.fa')
self.assertTrue(assembly.Assembly._has_gaps_to_fill(has_gaps))
@@ -86,11 +157,12 @@ class TestAssembly(unittest.TestCase):
def test_gap_fill_with_gapfiller_no_gaps(self):
+ return # but leave code here in case we decide to use gapfiller later
'''test _gap_fill_with_gapfiller no gaps'''
reads1 = os.path.join(data_dir, 'assembly_test_gapfill_with_gapfiller_reads_1.fq')
reads2 = os.path.join(data_dir, 'assembly_test_gapfill_with_gapfiller_reads_2.fq')
tmp_dir = 'tmp.gap_fill_with_gapfiller_no_gaps'
- a = assembly.Assembly(reads1, reads2, 'ref.fa', tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
+ a = assembly.Assembly(reads1, reads2, 'not needed', 'ref.fa', tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
a.scaffolder_scaffolds = os.path.join(data_dir, 'assembly_test_gapfill_with_gapfiller.scaffolds_no_gaps.fa')
a._gap_fill_with_gapfiller()
self.assertTrue(os.path.exists(a.gapfilled_scaffolds))
@@ -98,11 +170,12 @@ class TestAssembly(unittest.TestCase):
def test_gap_fill_with_gapfiller_with_gaps(self):
+ return # but leave code here in case we decide to use gapfiller later
'''test _gap_fill_with_gapfiller with gaps'''
reads1 = os.path.join(data_dir, 'assembly_test_gapfill_with_gapfiller_reads_1.fq')
reads2 = os.path.join(data_dir, 'assembly_test_gapfill_with_gapfiller_reads_2.fq')
tmp_dir = 'tmp.gap_fill_with_gapfiller_with_gaps'
- a = assembly.Assembly(reads1, reads2, 'ref.fa', tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
+ a = assembly.Assembly(reads1, reads2, 'not needed', 'ref.fa', tmp_dir, 'not_needed_for_this_test.fa', 'not_needed_for_this_test.bam', sys.stdout)
a.scaffolder_scaffolds = os.path.join(data_dir, 'assembly_test_gapfill_with_gapfiller.scaffolds_with_gaps.fa')
a._gap_fill_with_gapfiller()
self.assertTrue(os.path.exists(a.gapfilled_scaffolds))
diff --git a/ariba/tests/assembly_variants_test.py b/ariba/tests/assembly_variants_test.py
index 6061b29..83d805f 100644
--- a/ariba/tests/assembly_variants_test.py
+++ b/ariba/tests/assembly_variants_test.py
@@ -2,7 +2,7 @@ import unittest
import os
import pymummer
import pyfastaq
-from ariba import assembly_variants, reference_data, sequence_variant, sequence_metadata
+from ariba import assembly_variants, reference_data, sequence_metadata
modules_dir = os.path.dirname(os.path.abspath(assembly_variants.__file__))
data_dir = os.path.join(modules_dir, 'tests', 'data')
@@ -104,11 +104,9 @@ class TestAssemblyVariants(unittest.TestCase):
def test_get_one_variant_for_one_contig_non_coding(self):
'''test _get_one_variant_for_one_contig_non_coding'''
- refdata = reference_data.ReferenceData(
- non_coding_fa=os.path.join(data_dir, 'assembly_variants_test_get_variants_non_coding.fa'),
- metadata_tsv=os.path.join(data_dir, 'assembly_variants_test_get_one_variant_for_one_contig_non_coding.metadata.tsv')
- )
-
+ fasta_in = os.path.join(data_dir, 'assembly_variants_test_get_variants_non_coding.fa')
+ tsv_in = os.path.join(data_dir, 'assembly_variants_test_get_one_variant_for_one_contig_non_coding.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
ref_sequence_name = 'non_coding'
refdata_var_dict = refdata.metadata[ref_sequence_name]
@@ -120,8 +118,8 @@ class TestAssemblyVariants(unittest.TestCase):
# ref has T at position 5, which is wild type. This gives contig variant type A. Should report
v2 = pymummer.variant.Variant(pymummer.snp.Snp('5\tT\tA\t5\tx\tx\t42\t42\tx\tx\tnon_coding\tcontig'))
- meta0 = sequence_metadata.SequenceMetadata('non_coding\tn\tC3A\tid1\tref has variant type A')
- meta2 = sequence_metadata.SequenceMetadata('non_coding\tn\tT5A\tid1\tref has wild type T')
+ meta0 = sequence_metadata.SequenceMetadata('non_coding\t0\t0\tC3A\tid1\tref has variant type A')
+ meta2 = sequence_metadata.SequenceMetadata('non_coding\t0\t0\tT5A\tid1\tref has wild type T')
mummer_variants = [v0, v1, v2]
@@ -141,7 +139,6 @@ class TestAssemblyVariants(unittest.TestCase):
for i in range(len(mummer_variants)):
- used_known_variants = set()
got_tuple, got_used_variants = assembly_variants.AssemblyVariants._get_one_variant_for_one_contig_non_coding(refdata_var_dict, mummer_variants[i])
self.assertEqual(expected_tuples[i], got_tuple)
self.assertEqual(expected_used_variants[i], got_used_variants)
@@ -149,11 +146,9 @@ class TestAssemblyVariants(unittest.TestCase):
def test_get_one_variant_for_one_contig_coding(self):
'''test _get_one_variant_for_one_contig_coding'''
- refdata = reference_data.ReferenceData(
- presence_absence_fa=os.path.join(data_dir, 'assembly_variants_test_get_one_variant_for_one_contig_coding_presence_absence.fa'),
- metadata_tsv=os.path.join(data_dir, 'assembly_variants_test_get_one_variant_for_one_contig_coding_metadata.tsv')
- )
-
+ fasta_in = os.path.join(data_dir, 'assembly_variants_test_get_one_variant_for_one_contig_coding_presence_absence.fa')
+ tsv_in = os.path.join(data_dir, 'assembly_variants_test_get_one_variant_for_one_contig_coding_metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
ref_sequence_name = 'presence_absence'
ref_sequence = refdata.sequence(ref_sequence_name)
refdata_var_dict = refdata.metadata[ref_sequence_name]
@@ -188,8 +183,8 @@ class TestAssemblyVariants(unittest.TestCase):
mummer_variants = [[v0], [v1], [v2], [v3], [v4], [v5], [v6], [v7], [v8], [v9], [v10]]
- meta0 = sequence_metadata.SequenceMetadata('presence_absence\tp\tD2E\tid1\tref has wild type D (GAT=D, GAA=E)')
- meta4 = sequence_metadata.SequenceMetadata('presence_absence\tp\tS3R\tid1\tref has variant type R (AGA=R, AGT=S)')
+ meta0 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tD2E\tid1\tref has wild type D (GAT=D, GAA=E)')
+ meta4 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tS3R\tid1\tref has variant type R (AGA=R, AGT=S)')
expected_tuples = [
(1, 'p', 'D2E', 'NONSYN', [v0], {meta0}, set()), #0
@@ -222,7 +217,6 @@ class TestAssemblyVariants(unittest.TestCase):
assert len(mummer_variants) == len(expected_tuples) == len(expected_used_variants)
for i in range(len(mummer_variants)):
- used_known_variants = set()
got_tuple, got_used_variants = assembly_variants.AssemblyVariants._get_one_variant_for_one_contig_coding(ref_sequence, refdata_var_dict, mummer_variants[i])
self.assertEqual(expected_tuples[i], got_tuple)
self.assertEqual(expected_used_variants[i], got_used_variants)
@@ -230,13 +224,13 @@ class TestAssemblyVariants(unittest.TestCase):
def test_get_remaining_known_ref_variants_amino_acids(self):
'''test _get_remaining_known_ref_variants with amino acids'''
- ref_var1 = sequence_metadata.SequenceMetadata('gene1\tp\tD2E\tid1\tfoo bar')
- ref_var2 = sequence_metadata.SequenceMetadata('gene1\tp\tD3E\tid1\tfoo bar baz')
- ref_var3 = sequence_metadata.SequenceMetadata('gene1\tp\tD3I\tid1\tfoo bar baz spam')
- ref_var4 = sequence_metadata.SequenceMetadata('gene1\tp\tD10E\tid1\tfoo bar baz spam egg')
- ref_var5 = sequence_metadata.SequenceMetadata('gene1\tp\tD14E\tid1\tfoo bar baz spam egg chips')
- ref_var6 = sequence_metadata.SequenceMetadata('gene1\tp\tD15E\tid1\tfoo bar baz spam egg chips')
- ref_var7 = sequence_metadata.SequenceMetadata('gene1\tp\tD40E\tid1\tfoo bar baz spam egg chips')
+ ref_var1 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD2E\tid1\tfoo bar')
+ ref_var2 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD3E\tid1\tfoo bar baz')
+ ref_var3 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD3I\tid1\tfoo bar baz spam')
+ ref_var4 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD10E\tid1\tfoo bar baz spam egg')
+ ref_var5 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD14E\tid1\tfoo bar baz spam egg chips')
+ ref_var6 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD15E\tid1\tfoo bar baz spam egg chips')
+ ref_var7 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tD40E\tid1\tfoo bar baz spam egg chips')
known_ref_variants = {
1: {ref_var1},
@@ -261,13 +255,13 @@ class TestAssemblyVariants(unittest.TestCase):
def test_get_remaining_known_ref_variants_nucleotides(self):
'''test _get_remaining_known_ref_variants with nucleotides'''
- ref_var1 = sequence_metadata.SequenceMetadata('gene1\tn\tA2C\tid1\tfoo bar')
- ref_var2 = sequence_metadata.SequenceMetadata('gene1\tn\tA3C\tid1\tfoo bar baz')
- ref_var3 = sequence_metadata.SequenceMetadata('gene1\tn\tA3T\tid1\tfoo bar baz spam')
- ref_var4 = sequence_metadata.SequenceMetadata('gene1\tn\tA10C\tid1\tfoo bar baz spam egg')
- ref_var5 = sequence_metadata.SequenceMetadata('gene1\tn\tA14C\tid1\tfoo bar baz spam egg chips')
- ref_var6 = sequence_metadata.SequenceMetadata('gene1\tn\tA15C\tid1\tfoo bar baz spam egg chips')
- ref_var7 = sequence_metadata.SequenceMetadata('gene1\tn\tA40C\tid1\tfoo bar baz spam egg chips')
+ ref_var1 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA2C\tid1\tfoo bar')
+ ref_var2 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA3C\tid1\tfoo bar baz')
+ ref_var3 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA3T\tid1\tfoo bar baz spam')
+ ref_var4 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA10C\tid1\tfoo bar baz spam egg')
+ ref_var5 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA14C\tid1\tfoo bar baz spam egg chips')
+ ref_var6 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA15C\tid1\tfoo bar baz spam egg chips')
+ ref_var7 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA40C\tid1\tfoo bar baz spam egg chips')
known_ref_variants = {
1: {ref_var1},
@@ -292,11 +286,11 @@ class TestAssemblyVariants(unittest.TestCase):
def test_get_variants_presence_absence(self):
'''test get_variants presence absence genes'''
- meta1 = sequence_metadata.SequenceMetadata('presence_absence\tp\tD2E\tid1\tref has wild type D, contig has var (GAT=D, GAA=E)')
- meta2 = sequence_metadata.SequenceMetadata('presence_absence\tp\tS3R\tid1\tref has variant type R, contig has wild (AGA=R, AGT=S)')
- meta3 = sequence_metadata.SequenceMetadata('presence_absence\tp\tD4E\tid1\tref has variant type E, contig has var (GAA=E, GAC=D)')
- meta4 = sequence_metadata.SequenceMetadata('presence_absence\tp\tA5D\tid1\tref has wild type A, contig has var (GCG=A, GAC=D)')
- meta5 = sequence_metadata.SequenceMetadata('presence_absence\tp\tR13S\tid1\tref and qry have wild type')
+ meta1 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tD2E\tid1\tref has wild type D, contig has var (GAT=D, GAA=E)')
+ meta2 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tS3R\tid1\tref has variant type R, contig has wild (AGA=R, AGT=S)')
+ meta3 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tD4E\tid1\tref has variant type E, contig has var (GAA=E, GAC=D)')
+ meta4 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tA5D\tid1\tref has wild type A, contig has var (GCG=A, GAC=D)')
+ meta5 = sequence_metadata.SequenceMetadata('presence_absence\t1\t0\tR13S\tid1\tref and qry have wild type')
metadata_tsv = 'tmp.test_get_variants_presence_absence.metadata.tsv'
with open(metadata_tsv, 'w') as f:
@@ -306,15 +300,12 @@ class TestAssemblyVariants(unittest.TestCase):
print(meta4, file=f)
print(meta5, file=f)
- refdata = reference_data.ReferenceData(
- presence_absence_fa=os.path.join(data_dir, 'assembly_variants_test_get_variants_presence_absence.fa'),
- metadata_tsv=metadata_tsv
- )
+ fasta_in = os.path.join(data_dir, 'assembly_variants_test_get_variants_presence_absence.fa')
+ refdata = reference_data.ReferenceData([fasta_in], [metadata_tsv])
os.unlink(metadata_tsv)
nucmer_snp_file = os.path.join(data_dir, 'assembly_variants_test_get_variants_presence_absence.snps')
- v1 = pymummer.variant.Variant(pymummer.snp.Snp('9\tA\tT\t9\tx\tx\t42\t42\tx\tx\tpresence_absence\tcontig1'))
v2 = pymummer.variant.Variant(pymummer.snp.Snp('14\tC\tA\t14\tx\tx\t42\t42\tx\tx\tpresence_absence\tcontig1'))
v3 = pymummer.variant.Variant(pymummer.snp.Snp('15\tG\tC\t15\tx\tx\t42\t42\tx\tx\tpresence_absence\tcontig1'))
@@ -343,9 +334,9 @@ class TestAssemblyVariants(unittest.TestCase):
def test_get_variants_variants_only(self):
'''test get_variants variants only'''
- meta1 = sequence_metadata.SequenceMetadata('variants_only\tp\tD2E\tid1\tref has wild type D (GAT=D, GAA=E)')
- meta2 = sequence_metadata.SequenceMetadata('variants_only\tp\tS3R\tid1\tref has variant type R (AGA=R, AGT=S)')
- meta3 = sequence_metadata.SequenceMetadata('variants_only\tp\tD4E\tid1\tref has variant type E (GAA=E, GAC=D)')
+ meta1 = sequence_metadata.SequenceMetadata('variants_only\t1\t0\tD2E\tid1\tref has wild type D (GAT=D, GAA=E)')
+ meta2 = sequence_metadata.SequenceMetadata('variants_only\t1\t0\tS3R\tid1\tref has variant type R (AGA=R, AGT=S)')
+ meta3 = sequence_metadata.SequenceMetadata('variants_only\t1\t0\tD4E\tid1\tref has variant type E (GAA=E, GAC=D)')
metadata_tsv = 'tmp.test_get_variants_variants_only.metadata.tsv'
with open(metadata_tsv, 'w') as f:
@@ -353,15 +344,11 @@ class TestAssemblyVariants(unittest.TestCase):
print(meta2, file=f)
print(meta3, file=f)
- refdata = reference_data.ReferenceData(
- variants_only_fa=os.path.join(data_dir, 'assembly_variants_test_get_variants_variants_only.fa'),
- metadata_tsv=metadata_tsv
- )
-
+ fasta_in = os.path.join(data_dir, 'assembly_variants_test_get_variants_variants_only.fa')
+ refdata = reference_data.ReferenceData([fasta_in], [metadata_tsv])
os.unlink(metadata_tsv)
nucmer_snp_file = os.path.join(data_dir, 'assembly_variants_test_get_variants_variants_only.snps')
- v1 = pymummer.variant.Variant(pymummer.snp.Snp('9\tA\tT\t9\tx\tx\t42\t42\tx\tx\tvariants_only\tcontig1'))
v2 = pymummer.variant.Variant(pymummer.snp.Snp('14\tC\tA\t14\tx\tx\t42\t42\tx\tx\tvariants_only\tcontig1'))
v3 = pymummer.variant.Variant(pymummer.snp.Snp('15\tG\tC\t15\tx\tx\t42\t42\tx\tx\tvariants_only\tcontig1'))
diff --git a/ariba/tests/bam_parse_test.py b/ariba/tests/bam_parse_test.py
index d7a2e65..bb2fa20 100644
--- a/ariba/tests/bam_parse_test.py
+++ b/ariba/tests/bam_parse_test.py
@@ -1,6 +1,5 @@
import unittest
import os
-import copy
import pyfastaq
import pysam
from ariba import bam_parse, link
@@ -96,7 +95,6 @@ class TestBamParse(unittest.TestCase):
expected_soft_clipped = {'ref1': {2: [1, 0], 58: [0, 1]}}
expected_unmapped_mates = {'ref1': {2: 1}}
l = link.Link(None, None, None, s='\t'.join(['ref1', '500', 'R', '240', 'ref2', '500', 'L', '299']))
- expected_links = {('ref1', 'ref2'): [l]}
expected_link_keys = [('ref1', 'ref2')]
self.assertEqual(expected_soft_clipped, bp.soft_clipped)
self.assertEqual(expected_unmapped_mates, bp.unmapped_mates)
diff --git a/ariba/tests/cdhit_test.py b/ariba/tests/cdhit_test.py
index 813dba4..82b74eb 100644
--- a/ariba/tests/cdhit_test.py
+++ b/ariba/tests/cdhit_test.py
@@ -1,6 +1,5 @@
import unittest
import os
-import filecmp
from ariba import cdhit, external_progs
modules_dir = os.path.dirname(os.path.abspath(cdhit.__file__))
@@ -11,107 +10,96 @@ class TestCdhit(unittest.TestCase):
def test_init_fail_infile_missing(self):
'''test init_fail_infile_missing'''
with self.assertRaises(cdhit.Error):
- r = cdhit.Runner('oopsnotafile', 'out')
+ cdhit.Runner('oopsnotafile', 'out')
- def test_get_ids(self):
- '''test _get_ids'''
- infile = os.path.join(data_dir, 'cdhit_test_get_ids.fa')
- expected = {'id1', 'id2', 'id3'}
- r = cdhit.Runner(infile, 'out', cd_hit_est=extern_progs.exe('cdhit'))
- got = r._get_ids(infile)
+ def test_get_clusters_from_bak_file(self):
+ '''test _get_clusters_from_bak_file'''
+ infile = os.path.join(data_dir, 'cdhit_test_get_clusters_from_bak_file.in')
+ expected = {
+ '0': {'seq1', 'seq2', 'seq3'},
+ '1': {'seq4'},
+ '2': {'seq5'}
+ }
+ got = cdhit.Runner._get_clusters_from_bak_file(infile)
self.assertEqual(expected, got)
-
- def test_parse_cluster_info_file(self):
- '''test _parse_cluster_info_file'''
- cluster_representatives = {'seq1', 'seq4', 'seq6'}
- infile = os.path.join(data_dir, 'cdhit_test_parse_cluster_info_file.infile')
- got_clusters = cdhit.Runner._parse_cluster_info_file(infile, cluster_representatives)
- expected_clusters = {
- 'seq1': {'seq1', 'seq2', 'seq3'},
- 'seq4': {'seq4'},
- 'seq6': {'seq5', 'seq6'},
+ expected = {
+ '42': {'seq1', 'seq2', 'seq3'},
+ '43': {'seq4'},
+ '44': {'seq5'}
}
- self.assertEqual(expected_clusters, got_clusters)
-
+ got = cdhit.Runner._get_clusters_from_bak_file(infile, min_cluster_number=42)
+ self.assertEqual(expected, got)
- def test_rename_clusters(self):
- '''test _rename_clusters'''
- infile = os.path.join(data_dir, 'cdhit_test_rename_clusters.in.fa')
- tmpfile = 'tmp.test_rename_clusters.out.fa'
- expected_file = os.path.join(data_dir, 'cdhit_test_rename_clusters.expected.fa')
- clusters_in = {
- 'seq.foo': {'seq.foo', 'seq'},
- 'seq.bar': {'seq.bar', 'seq3.spam'},
- 'seq4.eggs': {'seq4.eggs'}
- }
- tmp_out = 'tmp.test_rename_clusters.out.fa'
+ def test_run(self):
+ '''test run'''
+ infile = os.path.join(data_dir, 'cdhit_test_run.in.fa')
+ r = cdhit.Runner(infile)
+ clusters = r.run()
expected_clusters = {
- 'seq.x': {'seq.foo', 'seq'},
- 'seq.x.2': {'seq.bar', 'seq3.spam'},
- 'seq4.x': {'seq4.eggs'}
+ '0': {'seq1', 'seq2', 'seq3'},
+ '1': {'seq4'},
}
- got = cdhit.Runner._rename_clusters(clusters_in, infile, tmpfile)
- self.assertEqual(expected_clusters, got)
- self.assertTrue(filecmp.cmp(expected_file, tmpfile, shallow=False))
- os.unlink(tmpfile)
+ self.assertEqual(clusters, expected_clusters)
- def test_run(self):
- '''test run'''
+ def test_run_min_cluster_number_42(self):
+ '''test run with min_cluster_number 42'''
infile = os.path.join(data_dir, 'cdhit_test_run.in.fa')
- expected_outfile = os.path.join(data_dir, 'cdhit_test_run.out.fa')
- tmpfile = 'tmp.cdhit_test_run.out.fa'
- r = cdhit.Runner(infile, tmpfile, cd_hit_est=extern_progs.exe('cdhit'))
+ r = cdhit.Runner(infile, min_cluster_number=42)
clusters = r.run()
expected_clusters = {
- 'seq1.x': {'seq1', 'seq2', 'seq3'},
- 'seq4.x': {'seq4'},
+ '42': {'seq1', 'seq2', 'seq3'},
+ '43': {'seq4'},
}
self.assertEqual(clusters, expected_clusters)
- self.assertTrue(filecmp.cmp(tmpfile, expected_outfile, shallow=False))
- os.unlink(tmpfile)
def test_fake_run(self):
'''test fake_run'''
infile = os.path.join(data_dir, 'cdhit_test_fake_run.in.fa')
- expected_outfile = os.path.join(data_dir, 'cdhit_test_fake_run.out.fa')
- tmpfile = 'tmp.cdhit_test_fake_run.out.fa'
- r = cdhit.Runner(infile, tmpfile, cd_hit_est=extern_progs.exe('cdhit'))
+ r = cdhit.Runner(infile)
+ clusters = r.fake_run()
+ expected_clusters = {
+ '0': {'seq1'},
+ '1': {'seq2'},
+ '2': {'seq3'},
+ '3': {'seq4'},
+ }
+ self.assertEqual(clusters, expected_clusters)
+
+
+ def test_fake_run_cluster_min_42(self):
+ '''test fake_run min_cluster 42'''
+ infile = os.path.join(data_dir, 'cdhit_test_fake_run.in.fa')
+ r = cdhit.Runner(infile, min_cluster_number=42)
clusters = r.fake_run()
expected_clusters = {
- 'seq1.x': {'seq1'},
- 'seq2.x': {'seq2'},
- 'seq3.x': {'seq3'},
- 'seq4.x': {'seq4'},
+ '42': {'seq1'},
+ '43': {'seq2'},
+ '44': {'seq3'},
+ '45': {'seq4'},
}
self.assertEqual(clusters, expected_clusters)
- self.assertTrue(filecmp.cmp(tmpfile, expected_outfile, shallow=False))
- os.unlink(tmpfile)
def test_fake_run_fail(self):
'''test fake_run with non-unique names'''
infile = os.path.join(data_dir, 'cdhit_test_fake_run.non-unique.in.fa')
- tmpfile = 'tmp.cdhit_test_fake_run.out.non-unique.fa'
- r = cdhit.Runner(infile, tmpfile, cd_hit_est=extern_progs.exe('cdhit'))
+ r = cdhit.Runner(infile)
with self.assertRaises(cdhit.Error):
- clusters = r.fake_run()
+ r.fake_run()
def test_load_user_clusters_file_good_file(self):
'''test _load_user_clusters_file with good input file'''
infile = os.path.join(data_dir, 'cdhit_test_load_user_clusters_file.good')
expected = {
- 'seq1': 'seq1',
- 'seq2': 'seq1',
- 'seq3': 'seq1',
- 'seq4': 'seq4',
- 'seq5': 'seq5',
- 'seq6': 'seq5',
+ '0': {'seq1', 'seq2', 'seq3'},
+ '1': {'seq4'},
+ '2': {'seq5', 'seq6'}
}
got = cdhit.Runner._load_user_clusters_file(infile)
@@ -134,14 +122,10 @@ class TestCdhit(unittest.TestCase):
'''test run_get_clusters_from_file'''
fa_infile = os.path.join(data_dir, 'cdhit_test_run_get_clusters_from_dict.in.fa')
clusters_infile = os.path.join(data_dir, 'cdhit_test_run_get_clusters_from_dict.in.clusters')
- expected_outfile = os.path.join(data_dir, 'cdhit_test_run_get_clusters_from_dict.out.fa')
- tmpfile = 'tmp.cdhit_test_run_get_clusters_from_dict.out.fa'
- r = cdhit.Runner(fa_infile, tmpfile, cd_hit_est=extern_progs.exe('cdhit'))
+ r = cdhit.Runner(fa_infile)
clusters = r.run_get_clusters_from_file(clusters_infile)
expected_clusters = {
- 'seq1.x': {'seq1', 'seq2'},
- 'seq3.x': {'seq3'},
+ '0': {'seq1', 'seq2'},
+ '1': {'seq3'},
}
self.assertEqual(clusters, expected_clusters)
- self.assertTrue(filecmp.cmp(tmpfile, expected_outfile, shallow=False))
- os.unlink(tmpfile)
diff --git a/ariba/tests/cluster_test.py b/ariba/tests/cluster_test.py
index 6e959eb..1d4d185 100644
--- a/ariba/tests/cluster_test.py
+++ b/ariba/tests/cluster_test.py
@@ -1,12 +1,8 @@
import unittest
import os
-import copy
import shutil
import filecmp
-import pyfastaq
-import pysam
-import pymummer
-from ariba import cluster, flag, reference_data
+from ariba import cluster, reference_data
modules_dir = os.path.dirname(os.path.abspath(cluster.__file__))
data_dir = os.path.join(modules_dir, 'tests', 'data')
@@ -36,7 +32,8 @@ class TestCluster(unittest.TestCase):
def test_init_fail_files_missing(self):
'''test init_fail_files_missing'''
refdata_fa = os.path.join(data_dir, 'cluster_test_init_refdata.fa')
- refdata = reference_data.ReferenceData(presence_absence_fa=refdata_fa)
+ meatadata_tsv = os.path.join(data_dir, 'cluster_test_init_refdata.tsv')
+ refdata = reference_data.ReferenceData([refdata_fa], [meatadata_tsv])
dirs = [
'cluster_test_init_no_refs_fa',
@@ -48,14 +45,12 @@ class TestCluster(unittest.TestCase):
tmpdir = 'tmp.cluster_test_init_fail_files_missing'
shutil.copytree(d, tmpdir)
with self.assertRaises(cluster.Error):
- c = cluster.Cluster(tmpdir, 'name', refdata=refdata, total_reads=42, total_reads_bases=4242)
+ cluster.Cluster(tmpdir, 'name', refdata=refdata, total_reads=42, total_reads_bases=4242)
shutil.rmtree(tmpdir)
def test_number_of_reads_for_assembly(self):
'''Test _number_of_reads_for_assembly'''
- # ref is 100bp long
- ref_fa = os.path.join(data_dir, 'cluster_test_number_of_reads_for_assembly.ref.fa')
tests = [
(50, 1000, 10, 20, 40),
(50, 999, 10, 20, 42),
@@ -64,7 +59,7 @@ class TestCluster(unittest.TestCase):
]
for insert, bases, reads, coverage, expected in tests:
- self.assertEqual(expected, cluster.Cluster._number_of_reads_for_assembly(ref_fa, insert, bases, reads, coverage))
+ self.assertEqual(expected, cluster.Cluster._number_of_reads_for_assembly(100, insert, bases, reads, coverage))
def test_make_reads_for_assembly_proper_sample(self):
@@ -87,8 +82,6 @@ class TestCluster(unittest.TestCase):
'''Test _make_reads_for_assembly when just makes symlinks'''
reads_in1 = os.path.join(data_dir, 'cluster_test_make_reads_for_assembly.in1.fq')
reads_in2 = os.path.join(data_dir, 'cluster_test_make_reads_for_assembly.in2.fq')
- expected_out1 = os.path.join(data_dir, 'cluster_test_make_reads_for_assembly.out1.fq')
- expected_out2 = os.path.join(data_dir, 'cluster_test_make_reads_for_assembly.out2.fq')
reads_out1 = 'tmp.test_make_reads_for_assembly.reads.out1.fq'
reads_out2 = 'tmp.test_make_reads_for_assembly.reads.out2.fq'
reads_written = cluster.Cluster._make_reads_for_assembly(20, 20, reads_in1, reads_in2, reads_out1, reads_out2, random_seed=42)
@@ -101,36 +94,54 @@ class TestCluster(unittest.TestCase):
os.unlink(reads_out2)
+ def test_full_run_no_reads_after_filtering(self):
+ '''test complete run of cluster when filtering removes all reads'''
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_no_reads_after_filtering.in.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_no_reads_after_filtering.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
+ tmpdir = 'tmp.test_full_run_no_reads_after_filtering'
+ shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_no_reads_after_filtering'), tmpdir)
+
+ c = cluster.Cluster(tmpdir, 'cluster_name', refdata, total_reads=0, total_reads_bases=0)
+ c.run()
+
+ expected = '\t'.join(['.', '.', '.', '64', '0', 'cluster_name'] + ['.'] * 24)
+ self.assertEqual([expected], c.report_lines)
+ self.assertFalse(c.status_flag.has('ref_seq_choose_fail'))
+ self.assertTrue(c.status_flag.has('assembly_fail'))
+ shutil.rmtree(tmpdir)
+
+
def test_full_run_choose_ref_fail(self):
'''test complete run of cluster when choosing ref seq fails'''
- refdata = reference_data.ReferenceData(
- presence_absence_fa=os.path.join(data_dir, 'cluster_test_full_run_choose_ref_fail.presence_absence.fa')
- )
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_choose_ref_fail.in.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_choose_ref_fail.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.test_full_run_choose_ref_fail'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_choose_ref_fail'), tmpdir)
- c = cluster.Cluster(tmpdir, 'cluster_name', refdata, total_reads=2, total_reads_bases=108)
+ c = cluster.Cluster(tmpdir, 'cluster_name', refdata, total_reads=2, total_reads_bases=108, spades_other_options='--only-assembler')
c.run()
- expected = '\t'.join(['.', '.', '1088', '2', 'cluster_name'] + ['.'] * 24)
+ expected = '\t'.join(['.', '.', '.', '1024', '2', 'cluster_name'] + ['.'] * 24)
self.assertEqual([expected], c.report_lines)
self.assertTrue(c.status_flag.has('ref_seq_choose_fail'))
- self.assertTrue(c.status_flag.has('assembly_fail'))
+ self.assertFalse(c.status_flag.has('assembly_fail'))
shutil.rmtree(tmpdir)
def test_full_run_assembly_fail(self):
'''test complete run of cluster when assembly fails'''
- refdata = reference_data.ReferenceData(
- non_coding_fa=os.path.join(data_dir, 'cluster_test_full_run_assembly_fail.noncoding.fa')
- )
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_assembly_fail.in.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_assembly_fail.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.test_full_run_assembly_fail'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_assembly_fail'), tmpdir)
c = cluster.Cluster(tmpdir, 'cluster_name', refdata, total_reads=4, total_reads_bases=304)
c.run()
- expected = '\t'.join(['noncoding_ref_seq', 'non_coding', '64', '4', 'cluster_name'] + ['.'] * 24)
+ expected = '\t'.join(['.', '.', '.', '64', '4', 'cluster_name'] + ['.'] * 24)
self.assertEqual([expected], c.report_lines)
self.assertFalse(c.status_flag.has('ref_seq_choose_fail'))
self.assertTrue(c.status_flag.has('assembly_fail'))
@@ -139,11 +150,9 @@ class TestCluster(unittest.TestCase):
def test_full_run_ok_non_coding(self):
'''test complete run of cluster on a noncoding sequence'''
- refdata = reference_data.ReferenceData(
- non_coding_fa=os.path.join(data_dir, 'cluster_test_full_run_ok_non_coding.fa'),
- metadata_tsv=os.path.join(data_dir, 'cluster_test_full_run_ok_non_coding.metadata.tsv')
- )
-
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_ok_non_coding.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_ok_non_coding.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.test_full_run_ok_non_coding'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_ok_non_coding'), tmpdir)
@@ -151,12 +160,12 @@ class TestCluster(unittest.TestCase):
c.run()
expected = [
- 'noncoding1\tnon_coding\t531\t72\tcluster_name\t120\t120\t95.87\tnoncoding1.scaffold.1\t234\t15.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t73\t73\tT\t19\t.\t19\tnoncoding1:n:A14T:.:ref has wild type, reads has variant so should report\tgeneric description of noncoding1',
- 'noncoding1\tnon_coding\t531\t72\tcluster_name\t120\t120\t95.87\tnoncoding1.scaffold.1\t234\t15.4\t0\t.\tn\t.\t0\tG61T\tSNP\t60\t60\tG\t120\t120\tT\t24\t.\t24\t.\tgeneric description of noncoding1',
- 'noncoding1\tnon_coding\t531\t72\tcluster_name\t120\t120\t95.87\tnoncoding1.scaffold.1\t234\t15.4\t0\t.\tn\t.\t0\t.82C\tINS\t81\t81\t.\t142\t142\tC\t23\t.\t23\t.\tgeneric description of noncoding1',
- 'noncoding1\tnon_coding\t531\t72\tcluster_name\t120\t120\t95.87\tnoncoding1.scaffold.1\t234\t15.4\t0\t.\tn\t.\t0\tT108.\tDEL\t107\t107\tT\t167\t167\t.\t17\t.\t17\t.\tgeneric description of noncoding1',
- 'noncoding1\tnon_coding\t531\t72\tcluster_name\t120\t120\t95.87\tnoncoding1.scaffold.1\t234\t15.4\t1\tSNP\tn\tA6G\t1\t.\t.\t6\t6\tG\t66\t66\tG\t19\t.\t19\tnoncoding1:n:A6G:.:variant in ref and reads so should report\tgeneric description of noncoding1',
- 'noncoding1\tnon_coding\t531\t72\tcluster_name\t120\t120\t95.87\tnoncoding1.scaffold.1\t234\t15.4\t1\tSNP\tn\tG9T\t0\t.\t.\t9\t9\tG\t69\t69\tG\t19\t.\t19\tnoncoding1:n:G9T:.:wild type in ref and reads\tgeneric description of noncoding1'
+ 'noncoding1\t0\t0\t531\t72\tcluster_name\t120\t120\t95.87\tcluster_name.scaffold.1\t234\t15.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t73\t73\tT\t19\t.\t19\tnoncoding1:0:0:A14T:.:ref has wild type, reads has variant so should report\tgeneric description of noncoding1',
+ 'noncoding1\t0\t0\t531\t72\tcluster_name\t120\t120\t95.87\tcluster_name.scaffold.1\t234\t15.4\t0\t.\tn\t.\t0\tG61T\tSNP\t60\t60\tG\t120\t120\tT\t24\t.\t24\t.\tgeneric description of noncoding1',
+ 'noncoding1\t0\t0\t531\t72\tcluster_name\t120\t120\t95.87\tcluster_name.scaffold.1\t234\t15.4\t0\t.\tn\t.\t0\t.82C\tINS\t81\t81\t.\t142\t142\tC\t23\t.\t23\t.\tgeneric description of noncoding1',
+ 'noncoding1\t0\t0\t531\t72\tcluster_name\t120\t120\t95.87\tcluster_name.scaffold.1\t234\t15.4\t0\t.\tn\t.\t0\tT108.\tDEL\t107\t107\tT\t167\t167\t.\t17\t.\t17\t.\tgeneric description of noncoding1',
+ 'noncoding1\t0\t0\t531\t72\tcluster_name\t120\t120\t95.87\tcluster_name.scaffold.1\t234\t15.4\t1\tSNP\tn\tA6G\t1\t.\t.\t6\t6\tG\t66\t66\tG\t19\t.\t19\tnoncoding1:0:0:A6G:.:variant in ref and reads so should report\tgeneric description of noncoding1',
+ 'noncoding1\t0\t0\t531\t72\tcluster_name\t120\t120\t95.87\tcluster_name.scaffold.1\t234\t15.4\t1\tSNP\tn\tG9T\t0\t.\t.\t9\t9\tG\t69\t69\tG\t19\t.\t19\tnoncoding1:0:0:G9T:.:wild type in ref and reads\tgeneric description of noncoding1'
]
self.assertEqual(expected, c.report_lines)
@@ -165,11 +174,9 @@ class TestCluster(unittest.TestCase):
def test_full_run_ok_presence_absence(self):
'''test complete run of cluster on a presence absence gene'''
- refdata = reference_data.ReferenceData(
- presence_absence_fa=os.path.join(data_dir, 'cluster_test_full_run_ok_presence_absence.fa'),
- metadata_tsv=os.path.join(data_dir, 'cluster_test_full_run_ok_presence_absence.metadata.tsv'),
- )
-
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_ok_presence_absence.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_ok_presence_absence.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.cluster_test_full_run_ok_presence_absence'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_ok_presence_absence'), tmpdir)
@@ -177,12 +184,12 @@ class TestCluster(unittest.TestCase):
c.run()
expected = [
- 'presence_absence1\tpresence_absence\t539\t64\tcluster_name\t96\t96\t97.92\tpresence_absence1.scaffold.1\t213\t15.0\t1\tSNP\tp\tA10V\t1\tA10V\tNONSYN\t28\t28\tC\t83\t83\tT\t22\t.\t22\tpresence_absence1:p:A10V:.:Ref has wild, reads have variant so report\tGeneric description of presence_absence1',
- 'presence_absence1\tpresence_absence\t539\t64\tcluster_name\t96\t96\t97.92\tpresence_absence1.scaffold.1\t213\t15.0\t0\t.\tp\t.\t0\t.\tSYN\t53\t53\tT\t108\t108\tC\t32\t.\t32\t.\tGeneric description of presence_absence1',
+ 'presence_absence1\t1\t0\t539\t64\tcluster_name\t96\t96\t97.92\tcluster_name.scaffold.1\t213\t15.0\t1\tSNP\tp\tA10V\t1\tA10V\tNONSYN\t28\t28\tC\t83\t83\tT\t22\t.\t22\tpresence_absence1:1:0:A10V:.:Ref has wild, reads have variant so report\tGeneric description of presence_absence1',
+ 'presence_absence1\t1\t0\t539\t64\tcluster_name\t96\t96\t97.92\tcluster_name.scaffold.1\t213\t15.0\t0\t.\tp\t.\t0\t.\tSYN\t53\t53\tT\t108\t108\tC\t32\t.\t32\t.\tGeneric description of presence_absence1',
- 'presence_absence1\tpresence_absence\t539\t64\tcluster_name\t96\t96\t97.92\tpresence_absence1.scaffold.1\t213\t15.0\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t62\t64\tC;G;C\t18;17;17\t.;.;.\t18;17;17\tpresence_absence1:p:R3S:.:Ref and assembly have wild type\tGeneric description of presence_absence1',
+ 'presence_absence1\t1\t0\t539\t64\tcluster_name\t96\t96\t97.92\tcluster_name.scaffold.1\t213\t15.0\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t62\t64\tC;G;C\t18;17;17\t.;.;.\t18;17;17\tpresence_absence1:1:0:R3S:.:Ref and assembly have wild type\tGeneric description of presence_absence1',
- 'presence_absence1\tpresence_absence\t539\t64\tcluster_name\t96\t96\t97.92\tpresence_absence1.scaffold.1\t213\t15.0\t1\tSNP\tp\tI5A\t1\t.\t.\t13\t15\tG;C;G\t68\t70\tG;C;G\t18;20;20\t.;.;.\t18;20;20\tpresence_absence1:p:I5A:.:Ref and reads have variant so report\tGeneric description of presence_absence1',
+ 'presence_absence1\t1\t0\t539\t64\tcluster_name\t96\t96\t97.92\tcluster_name.scaffold.1\t213\t15.0\t1\tSNP\tp\tI5A\t1\t.\t.\t13\t15\tG;C;G\t68\t70\tG;C;G\t18;20;20\t.;.;.\t18;20;20\tpresence_absence1:1:0:I5A:.:Ref and reads have variant so report\tGeneric description of presence_absence1',
]
self.assertEqual(expected, c.report_lines)
@@ -191,18 +198,16 @@ class TestCluster(unittest.TestCase):
def test_full_run_ok_variants_only_variant_not_present(self):
'''test complete run of cluster on a variants only gene when variant not present'''
- refdata = reference_data.ReferenceData(
- variants_only_fa=os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.fa'),
- metadata_tsv=os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.not_present.metadata.tsv'),
- )
-
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.not_present.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.cluster_test_full_run_ok_variants_only.not_present'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only'), tmpdir)
c = cluster.Cluster(tmpdir, 'cluster_name', refdata, spades_other_options='--only-assembler', total_reads=66, total_reads_bases=3300)
c.run()
expected = [
- 'variants_only1\tvariants_only\t27\t66\tcluster_name\t96\t96\t100.0\tvariants_only1.scaffold.1\t215\t15.3\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t65\t67\tC;G;C\t18;18;19\t.;.;.\t18;18;19\tvariants_only1:p:R3S:.:Ref and assembly have wild type, so do not report\tGeneric description of variants_only1'
+ 'variants_only1\t1\t1\t27\t66\tcluster_name\t96\t96\t100.0\tcluster_name.scaffold.1\t215\t15.3\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t65\t67\tC;G;C\t18;18;19\t.;.;.\t18;18;19\tvariants_only1:1:1:R3S:.:Ref and assembly have wild type, so do not report\tGeneric description of variants_only1'
]
self.assertEqual(expected, c.report_lines)
shutil.rmtree(tmpdir)
@@ -210,18 +215,16 @@ class TestCluster(unittest.TestCase):
def test_full_run_ok_variants_only_variant_not_present_always_report(self):
'''test complete run of cluster on a variants only gene when variant not present but always report variant'''
- refdata = reference_data.ReferenceData(
- variants_only_fa=os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.fa'),
- metadata_tsv=os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.not_present.always_report.metadata.tsv'),
- )
-
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.not_present.always_report.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.cluster_test_full_run_ok_variants_only.not_present.always_report'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only'), tmpdir)
c = cluster.Cluster(tmpdir, 'cluster_name', refdata, spades_other_options='--only-assembler', total_reads=66, total_reads_bases=3300)
c.run()
expected = [
- 'variants_only1\tvariants_only\t27\t66\tcluster_name\t96\t96\t100.0\tvariants_only1.scaffold.1\t215\t15.3\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t65\t67\tC;G;C\t18;18;19\t.;.;.\t18;18;19\tvariants_only1:p:R3S:.:Ref and assembly have wild type, but always report anyway\tGeneric description of variants_only1'
+ 'variants_only1\t1\t1\t27\t66\tcluster_name\t96\t96\t100.0\tcluster_name.scaffold.1\t215\t15.3\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t65\t67\tC;G;C\t18;18;19\t.;.;.\t18;18;19\tvariants_only1:1:1:R3S:.:Ref and assembly have wild type, but always report anyway\tGeneric description of variants_only1'
]
self.assertEqual(expected, c.report_lines)
shutil.rmtree(tmpdir)
@@ -229,11 +232,9 @@ class TestCluster(unittest.TestCase):
def test_full_run_ok_variants_only_variant_is_present(self):
'''test complete run of cluster on a variants only gene when variant is present'''
- refdata = reference_data.ReferenceData(
- variants_only_fa=os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.fa'),
- metadata_tsv=os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.present.metadata.tsv'),
- )
-
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only.present.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmpdir = 'tmp.cluster_test_full_run_ok_variants_only.present'
shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_ok_variants_only'), tmpdir)
@@ -241,8 +242,25 @@ class TestCluster(unittest.TestCase):
c.run()
expected = [
- 'variants_only1\tvariants_only\t27\t66\tcluster_name\t96\t96\t100.0\tvariants_only1.scaffold.1\t215\t15.3\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t65\t67\tC;G;C\t18;18;19\t.;.;.\t18;18;19\tvariants_only1:p:R3S:.:Ref and assembly have wild type\tGeneric description of variants_only1',
- 'variants_only1\tvariants_only\t27\t66\tcluster_name\t96\t96\t100.0\tvariants_only1.scaffold.1\t215\t15.3\t1\tSNP\tp\tI5A\t1\t.\t.\t13\t15\tG;C;G\t71\t73\tG;C;G\t17;17;17\t.;.;.\t17;17;17\tvariants_only1:p:I5A:.:Ref and reads have variant so report\tGeneric description of variants_only1',
+ 'variants_only1\t1\t1\t27\t66\tcluster_name\t96\t96\t100.0\tcluster_name.scaffold.1\t215\t15.3\t1\tSNP\tp\tR3S\t0\t.\t.\t7\t9\tC;G;C\t65\t67\tC;G;C\t18;18;19\t.;.;.\t18;18;19\tvariants_only1:1:1:R3S:.:Ref and assembly have wild type\tGeneric description of variants_only1',
+ 'variants_only1\t1\t1\t27\t66\tcluster_name\t96\t96\t100.0\tcluster_name.scaffold.1\t215\t15.3\t1\tSNP\tp\tI5A\t1\t.\t.\t13\t15\tG;C;G\t71\t73\tG;C;G\t17;17;17\t.;.;.\t17;17;17\tvariants_only1:1:1:I5A:.:Ref and reads have variant so report\tGeneric description of variants_only1',
+ ]
+ self.assertEqual(expected, c.report_lines)
+ shutil.rmtree(tmpdir)
+
+
+ def test_full_run_ok_gene_start_mismatch(self):
+ '''test complete run where gene extended because too different at end for full nucmer match'''
+ fasta_in = os.path.join(data_dir, 'cluster_test_full_run_ok_gene_start_mismatch.fa')
+ tsv_in = os.path.join(data_dir, 'cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
+ tmpdir = 'tmp.cluster_test_full_run_ok_gene_start_mismatch'
+ shutil.copytree(os.path.join(data_dir, 'cluster_test_full_run_ok_gene_start_mismatch'), tmpdir)
+ c = cluster.Cluster(tmpdir, 'cluster_name', refdata, spades_other_options='--only-assembler', total_reads=112, total_reads_bases=1080)
+ c.run()
+ expected = [
+ 'gene\t1\t0\t27\t112\tcluster_name\t96\t96\t100.0\tcluster_name.scaffold.1\t364\t27.0\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\tGeneric description of gene'
]
self.assertEqual(expected, c.report_lines)
shutil.rmtree(tmpdir)
+
diff --git a/ariba/tests/clusters_test.py b/ariba/tests/clusters_test.py
index 60ec0c4..29bde88 100644
--- a/ariba/tests/clusters_test.py
+++ b/ariba/tests/clusters_test.py
@@ -2,10 +2,9 @@ import unittest
import shutil
import os
import pickle
-import pysam
import pyfastaq
import filecmp
-from ariba import clusters, external_progs, reference_data, sequence_metadata
+from ariba import clusters, external_progs, histogram, sequence_metadata
modules_dir = os.path.dirname(os.path.abspath(clusters.__file__))
data_dir = os.path.join(modules_dir, 'tests', 'data')
@@ -24,12 +23,13 @@ class TestClusters(unittest.TestCase):
self.cluster_dir = 'tmp.Cluster'
self.refdata_dir = 'tmp.RefData'
os.mkdir(self.refdata_dir)
- shutil.copyfile(os.path.join(data_dir, 'clusters_test_dummy_db.fa'), os.path.join(self.refdata_dir, 'refcheck.01.check_variants.non_coding.fa'))
- with open(os.path.join(self.refdata_dir, 'info.txt'), 'w') as f:
+ shutil.copyfile(os.path.join(data_dir, 'clusters_test_dummy_db.fa'), os.path.join(self.refdata_dir, '02.cdhit.all.fa'))
+ shutil.copyfile(os.path.join(data_dir, 'clusters_test_dummy_db.tsv'), os.path.join(self.refdata_dir, '01.filter.check_metadata.tsv'))
+ with open(os.path.join(self.refdata_dir, '00.info.txt'), 'w') as f:
print('genetic_code\t11', file=f)
- with open(os.path.join(self.refdata_dir, 'cdhit.clusters.pickle'), 'wb') as f:
- pickle.dump({'x': {'x'}}, f)
+ with open(os.path.join(self.refdata_dir, '02.cdhit.clusters.pickle'), 'wb') as f:
+ pickle.dump({'0': {'x'}}, f)
reads1 = os.path.join(data_dir, 'clusters_test_dummy_reads_1.fq')
reads2 = os.path.join(data_dir, 'clusters_test_dummy_reads_2.fq')
@@ -53,78 +53,116 @@ class TestClusters(unittest.TestCase):
'''test _load_reference_data_from_dir'''
indir = os.path.join(data_dir, 'clusters_test_load_reference_data_from_dir')
got_refdata, got_clusters = clusters.Clusters._load_reference_data_from_dir(indir)
- expected_seq_dicts = {
- 'variants_only': {'variants_only1': pyfastaq.sequences.Fasta('variants_only1', 'atggcgtgcgatgaataa')},
- 'presence_absence': {'presabs1': pyfastaq.sequences.Fasta('presabs1', 'atgatgatgagcccggcgatggaaggcggctag')},
- 'non_coding': {'noncoding1': pyfastaq.sequences.Fasta('noncoding1', 'ACGTA')},
+ expected_seq_dict = {
+ 'variants_only1': pyfastaq.sequences.Fasta('variants_only1', 'atggcgtgcgatgaataa'),
+ 'presabs1': pyfastaq.sequences.Fasta('presabs1', 'atgatgatgagcccggcgatggaaggcggctag'),
+ 'noncoding1': pyfastaq.sequences.Fasta('noncoding1', 'ACGTA'),
}
- self.assertEqual(expected_seq_dicts, got_refdata.seq_dicts)
+ self.assertEqual(expected_seq_dict, got_refdata.sequences)
self.assertEqual(11, got_refdata.genetic_code)
expected_metadata = {
'presabs1': {
- '.': {sequence_metadata.SequenceMetadata('presabs1\t.\t.\t.\tpresabs1 description')},
+ 'seq_type': 'p',
+ 'variant_only': False,
+ '.': {sequence_metadata.SequenceMetadata('presabs1\t1\t0\t.\t.\tpresabs1 description')},
'n': {},
'p': {}
},
'variants_only1': {
+ 'seq_type': 'p',
+ 'variant_only': True,
'.': set(),
'n': {},
- 'p': {1: {sequence_metadata.SequenceMetadata('variants_only1\tp\tC2I\t.\tdescription of variants_only1 C2I')}}
+ 'p': {1: {sequence_metadata.SequenceMetadata('variants_only1\t1\t1\tC2I\t.\tdescription of variants_only1 C2I')}}
+ },
+ 'noncoding1': {
+ 'seq_type': 'n',
+ 'variant_only': False,
+ '.': {sequence_metadata.SequenceMetadata('noncoding1\t0\t0\t.\t.\t.')},
+ 'n': {},
+ 'p': {},
}
}
self.assertEqual(expected_metadata, got_refdata.metadata)
- expected_clusters = {'key1': 1, 'key2': 2}
+ expected_clusters = {'0': {'presabs1'}, '1': {'variants_only1'}, '2': {'noncoding1'}}
self.assertEqual(expected_clusters, got_clusters)
- def test_bam_to_clusters_reads_no_reads_map(self):
- '''test _bam_to_clusters_reads when no reads map'''
- clusters_dir = 'tmp.Cluster.test_bam_to_clusters_reads_no_reads_map'
- reads1 = os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads_no_reads_map_1.fq')
- reads2 = os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads_no_reads_map_2.fq')
- ref = os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads.db.fa')
- refdata = reference_data.ReferenceData(presence_absence_fa = ref)
- c = clusters.Clusters(self.refdata_dir, reads1, reads2, clusters_dir, extern_progs, clean=False)
- shutil.copyfile(os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads_no_reads_map.bam'), c.bam)
- c._bam_to_clusters_reads()
-
- self.assertEqual({}, c.insert_hist.bins)
- self.assertEqual({}, c.cluster_read_counts)
- self.assertEqual({}, c.cluster_base_counts)
- self.assertEqual(0, c.proper_pairs)
-
- shutil.rmtree(clusters_dir)
-
-
- def test_bam_to_clusters_reads(self):
- '''test _bam_to_clusters_reads'''
- clusters_dir = 'tmp.Cluster.test_bam_to_clusters_reads'
- reads1 = os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads.reads_1.fq')
- reads2 = os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads.reads_2.fq')
- ref = os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads.db.fa')
- refdata = reference_data.ReferenceData(presence_absence_fa = ref)
- c = clusters.Clusters(self.refdata_dir, reads1, reads2, clusters_dir, extern_progs, clean=False)
- shutil.copyfile(os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads.bam'), c.bam)
- c._bam_to_clusters_reads()
- expected = [
- os.path.join(data_dir, 'clusters_test_bam_to_clusters.out.ref1.reads_1.fq'),
- os.path.join(data_dir, 'clusters_test_bam_to_clusters.out.ref1.reads_2.fq'),
- os.path.join(data_dir, 'clusters_test_bam_to_clusters.out.ref2.reads_1.fq'),
- os.path.join(data_dir, 'clusters_test_bam_to_clusters.out.ref2.reads_2.fq'),
- ]
-
- got_reads_store_lines = file_to_list(os.path.join(clusters_dir, 'read_store.gz'))
- expected_reads_store_lines = file_to_list(os.path.join(data_dir, 'clusters_test_bam_to_clusters_reads.read_store.gz'))
-
- self.assertEqual(expected_reads_store_lines, got_reads_store_lines)
- self.assertEqual({780:1}, c.insert_hist.bins)
- self.assertEqual({'ref1': 4, 'ref2': 2}, c.cluster_read_counts)
- self.assertEqual({'ref1': 240, 'ref2': 120}, c.cluster_base_counts)
- self.assertEqual(1, c.proper_pairs)
-
- shutil.rmtree(clusters_dir)
+ def test_minimap_reads_to_all_ref_seqs(self):
+ '''test test_minimap_reads_to_all_ref_seqs'''
+ clusters_tsv = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.clusters.tsv')
+ ref_fasta = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.ref.fa')
+ reads_1 = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.reads_1.fq')
+ reads_2 = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.reads_2.fq')
+ tmp_outprefix = 'tmp.clusters_test_minimap_reads_to_all_ref_seqs'
+ clusters.Clusters._minimap_reads_to_all_ref_seqs(clusters_tsv, ref_fasta, reads_1, reads_2, tmp_outprefix)
+ expected_cluster2rep = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.out.cluster2representative')
+ expected_cluster_counts = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.out.clusterCounts')
+ expected_proper_pairs = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.out.properPairs')
+ expected_insert_hist = os.path.join(data_dir, 'clusters_test_minimap_reads_to_all_ref_seqs.out.insertHistogram')
+
+ # not sure that the reads order is preserved, so just check read store file exists
+ self.assertTrue(os.path.exists(os.path.join(tmp_outprefix + '.reads')))
+
+ self.assertTrue(filecmp.cmp(expected_cluster2rep, tmp_outprefix + '.cluster2representative', shallow=False))
+ self.assertTrue(filecmp.cmp(expected_cluster_counts, tmp_outprefix + '.clusterCounts', shallow=False))
+ self.assertTrue(filecmp.cmp(expected_proper_pairs, tmp_outprefix + '.properPairs', shallow=False))
+ self.assertTrue(filecmp.cmp(expected_insert_hist, tmp_outprefix + '.insertHistogram', shallow=False))
+ os.unlink(tmp_outprefix + '.cluster2representative')
+ os.unlink(tmp_outprefix + '.clusterCounts')
+ os.unlink(tmp_outprefix + '.properPairs')
+ os.unlink(tmp_outprefix + '.insertHistogram')
+ os.unlink(tmp_outprefix + '.reads')
+
+
+ def test_load_minimap_out_cluster2representative(self):
+ '''test _load_minimap_out_cluster2representative'''
+ infile = os.path.join(data_dir, 'clusters_test_load_minimap_out_cluster2representative.in')
+ got = clusters.Clusters._load_minimap_out_cluster2representative(infile)
+ expected = {'1': 'ref2', '2': 'ref42'}
+ self.assertEqual(expected, got)
+
+
+ def test_load_minimap_out_cluster_counts(self):
+ '''test _load_minimap_out_cluster_counts'''
+ infile = os.path.join(data_dir, 'clusters_test_load_minimap_out_cluster_counts.in')
+ got_read_count, got_base_count = clusters.Clusters._load_minimap_out_cluster_counts(infile)
+ expected_read_count = {'1': 42, '2': 43}
+ expected_base_count = {'1': 4242, '2': 4343}
+ self.assertEqual(got_read_count, expected_read_count)
+ self.assertEqual(got_base_count, expected_base_count)
+
+
+ def test_load_minimap_insert_histogram(self):
+ '''test _load_minimap_insert_histogram'''
+ infile = os.path.join(data_dir, 'clusters_test_load_minimap_insert_histogram.in')
+ bin_size = 10
+ got = clusters.Clusters._load_minimap_insert_histogram(infile, bin_size)
+ expected = histogram.Histogram(bin_size)
+ expected.add(85, count=1)
+ expected.add(86, count=2)
+ expected.add(90, count=4)
+ expected.add(91, count=6)
+ expected.add(97, count=10)
+ expected.add(100, count=7)
+ expected.add(111, count=3)
+ self.assertEqual(expected, got)
+
+
+ def test_load_minimap_proper_pairs(self):
+ '''test _load_minimap_proper_pairs'''
+ infile = os.path.join(data_dir, 'clusters_test_load_minimap_proper_pairs.in')
+ got = clusters.Clusters._load_minimap_proper_pairs(infile)
+ self.assertEqual(42424242, got)
+
+
+ def test_load_minimap_files(self):
+ '''test _load_minimap_files'''
+ bin_size = 10
+ inprefix = os.path.join(data_dir, 'clusters_test_load_minimap_files')
+ got_clster2rep, got_cluster_read_count, got_cluster_base_count, got_insert_hist, got_proper_pairs = clusters.Clusters._load_minimap_files(inprefix, bin_size)
def test_set_insert_size_data(self):
@@ -148,7 +186,7 @@ class TestClusters(unittest.TestCase):
self.assertEqual(self.clusters.insert_sspace_sd, 0.91)
- def test_write_reports(self):
+ def test_write_report(self):
class FakeCluster:
def __init__(self, lines):
self.report_lines = lines
@@ -158,15 +196,12 @@ class TestClusters(unittest.TestCase):
'gene2': FakeCluster(['gene2\tline2'])
}
- tmp_tsv = 'tmp.test_write_reports.tsv'
- tmp_xls = 'tmp.test_write_reports.xls'
- clusters.Clusters._write_reports(clusters_dict, tmp_tsv, tmp_xls)
+ tmp_tsv = 'tmp.test_write_report.tsv'
+ clusters.Clusters._write_report(clusters_dict, tmp_tsv)
expected = os.path.join(data_dir, 'clusters_test_write_report.tsv')
self.assertTrue(filecmp.cmp(expected, tmp_tsv, shallow=False))
- self.assertTrue(os.path.exists(tmp_xls))
os.unlink(tmp_tsv)
- os.unlink(tmp_xls)
def test_write_catted_assembled_seqs_fasta(self):
diff --git a/ariba/tests/data/aln_to_metadata_make_cluster_file.out b/ariba/tests/data/aln_to_metadata_make_cluster_file.out
index 529a3cc..1f6f629 100644
--- a/ariba/tests/data/aln_to_metadata_make_cluster_file.out
+++ b/ariba/tests/data/aln_to_metadata_make_cluster_file.out
@@ -1 +1 @@
-seq2 seq1 seq3
+seq1 seq2 seq3
diff --git a/ariba/tests/data/aln_to_metadata_run_coding.out.cluster b/ariba/tests/data/aln_to_metadata_run_coding.out.cluster
index 6df8ac7..4d02459 100644
--- a/ariba/tests/data/aln_to_metadata_run_coding.out.cluster
+++ b/ariba/tests/data/aln_to_metadata_run_coding.out.cluster
@@ -1 +1 @@
-seq3 seq1 seq2 seq4 seq5
+seq1 seq2 seq3 seq4 seq5
diff --git a/ariba/tests/data/aln_to_metadata_run_coding.out.tsv b/ariba/tests/data/aln_to_metadata_run_coding.out.tsv
index ee957fa..e2a3f0c 100644
--- a/ariba/tests/data/aln_to_metadata_run_coding.out.tsv
+++ b/ariba/tests/data/aln_to_metadata_run_coding.out.tsv
@@ -1,7 +1,7 @@
-seq1 p A2D id1 description 1
-seq2 p A2D id1 description 1
-seq4 p C3D id1 description 1
-seq5 p A3D id1 description 1
-seq5 p F2E id2 description 2
-seq3 p F2E id2 description 2
-seq4 p F2E id2 description 2
+seq1 1 0 A2D id1 description 1
+seq2 1 0 A2D id1 description 1
+seq4 1 0 C3D id1 description 1
+seq5 1 0 A3D id1 description 1
+seq5 1 0 F2E id2 description 2
+seq3 1 0 F2E id2 description 2
+seq4 1 0 F2E id2 description 2
diff --git a/ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster b/ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster
index aee4e5a..4d02459 100644
--- a/ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster
+++ b/ariba/tests/data/aln_to_metadata_run_noncoding.out.cluster
@@ -1 +1 @@
-seq2 seq1 seq3 seq4 seq5
+seq1 seq2 seq3 seq4 seq5
diff --git a/ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv b/ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv
index 7ba82bf..03f1d21 100644
--- a/ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv
+++ b/ariba/tests/data/aln_to_metadata_run_noncoding.out.tsv
@@ -1,7 +1,7 @@
-seq1 n C5T id1 description 1
-seq2 n C5T id1 description 1
-seq4 n G8T id1 description 1
-seq5 n A8T id1 description 1
-seq5 n A5T id2 description 2
-seq3 n A5T id2 description 2
-seq4 n G5T id2 description 2
+seq1 0 1 C5T id1 description 1
+seq2 0 1 C5T id1 description 1
+seq4 0 1 G8T id1 description 1
+seq5 0 1 A8T id1 description 1
+seq5 0 1 A5T id2 description 2
+seq3 0 1 A5T id2 description 2
+seq4 0 1 G5T id2 description 2
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite.expected.fa b/ariba/tests/data/assembly_assemble_with_fermilite.expected.fa
new file mode 100644
index 0000000..a763a9b
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite.expected.fa
@@ -0,0 +1,2 @@
+>contig.0
+CTCGCGGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGTGCGCTACCTGCTTAGCCTACGACACGGCAGGAGCCTGCTAGGCCCTGAATAAGTGTCAGCTGATGCGGCTAGCGAAGTACCAACCATGCGCTGAGGTTCAAGGCTGTCCAACCTAGATG
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite.expected.log b/ariba/tests/data/assembly_assemble_with_fermilite.expected.log
new file mode 100644
index 0000000..c6e5e31
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite.expected.log
@@ -0,0 +1,11 @@
+First line
+Fermilite assembly stats:
+Min_count Contig_number Mean_length Longest
+4 1 499 499
+8 1 499 499
+12 1 428 428
+16 1 428 428
+20 1 384 384
+25 1 384 384
+30 1 373 373
+Best assembly is from min_count 4
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq b/ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq
new file mode 100644
index 0000000..c367e21
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite.reads_1.fq
@@ -0,0 +1,232 @@
+ at 1:1:82:186/1
+GCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:6:109/1
+GGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:1:106/1
+CTCGCGGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:33:136/1
+TGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:196:299/1
+CCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTTTAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:63:168/1
+CAGAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:7:10:111/1
+TTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTAGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:8:74:178/1
+AGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:9:84:186/1
+TCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1:41:144/1
+CCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:2:144:247/1
+ATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:3:225:329/1
+CTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:4:237:340/1
+GCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:5:45:151/1
+GACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:6:284:386/1
+CGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:7:305:407/1
+CTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:8:213:317/1
+CTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:9:183:287/1
+GATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:10:289:393/1
+TCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:11:296:399/1
+GTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:12:270:373/1
+GTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:13:167:271/1
+CTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:14:43:147/1
+TTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:15:323:424/1
+TCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGTGCGCTACCTGCTTAGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:16:105:207/1
+AGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:17:237:341/1
+GCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:18:3:107/1
+CGCGGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:19:272:374/1
+GTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:20:251:354/1
+GTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:21:95:199/1
+CTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:22:96:199/1
+TCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:23:94:197/1
+ACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:24:185:289/1
+TTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:25:152:256/1
+CGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:26:285:389/1
+GTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:27:137:241/1
+TGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:28:261:365/1
+GGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:29:12:116/1
+AGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:30:107:210/1
+CTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:31:162:266/1
+AGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:32:213:317.dup.2/1
+CTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:33:24:127/1
+TGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:34:84:189/1
+TCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:35:40:145/1
+CCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:36:120:223/1
+TGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:37:106:211/1
+GCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:38:98:202/1
+TGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:39:72:177/1
+AAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:40:16:120/1
+TGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:41:308:410/1
+GAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:42:26:129/1
+CCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:43:130:234/1
+CAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:44:52:157/1
+TCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:45:220:323/1
+GCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:46:125:228/1
+TCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:47:210:314/1
+TGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:48:220:324/1
+GCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:49:25:128/1
+GCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq b/ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq
new file mode 100644
index 0000000..14747f6
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite.reads_2.fq
@@ -0,0 +1,232 @@
+ at 1:1:82:186/2
+CCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:6:109/2
+TCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:1:106/2
+TCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTTGTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:33:136/2
+CAATGGGAGTAGAAGGTCAACCTATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:196:299/2
+TTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:63:168/2
+CTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATAATCGTCAGAGCACGATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:7:10:111/2
+AATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:8:74:178/2
+GACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATAATCGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:9:84:186/2
+CCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1:41:144/2
+GTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:2:144:247/2
+CGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:3:225:329/2
+TGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:4:237:340/2
+GGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:5:45:151/2
+AGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:6:284:386/2
+GGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:7:305:407/2
+CTTGAACCTCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:8:213:317/2
+AGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:9:183:287/2
+GCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:10:289:393/2
+CATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:11:296:399/2
+TCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:12:270:373/2
+CCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:13:167:271/2
+TGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:14:43:147/2
+AGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:15:323:424/2
+CATCTAGGTTGGACAGCCTTGAACCTCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:16:105:207/2
+GTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:17:237:341/2
+AGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:18:3:107/2
+GTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTTGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:19:272:374/2
+GCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:20:251:354/2
+TTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:21:95:199/2
+AACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:22:96:199/2
+AACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:23:94:197/2
+CACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:24:185:289/2
+AAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:25:152:256/2
+GAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:26:285:389/2
+GTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:27:137:241/2
+TACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:28:261:365/2
+GCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:29:12:116/2
+CATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:30:107:210/2
+CGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:31:162:266/2
+GAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:32:213:317.dup.2/2
+AGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:33:24:127/2
+TAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:34:84:189/2
+CGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:35:40:145/2
+CGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:36:120:223/2
+CACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:37:106:211/2
+ACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:38:98:202/2
+CGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:39:72:177/2
+ACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:40:16:120/2
+TCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:41:308:410/2
+AGCCTTGAACCTCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:42:26:129/2
+AGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:43:130:234/2
+TCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:44:52:157/2
+GACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:45:220:323/2
+AGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:46:125:228/2
+ATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:47:210:314/2
+AGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:48:220:324/2
+TAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:49:25:128/2
+GTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log b/ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log
new file mode 100644
index 0000000..2a6f027
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite_fails.expected.log
@@ -0,0 +1,11 @@
+First line
+Fermilite assembly stats:
+Min_count Contig_number Mean_length Longest
+4 0 0 0
+8 0 0 0
+12 0 0 0
+16 0 0 0
+20 0 0 0
+25 0 0 0
+30 0 0 0
+Didn't get any assemblies!
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq b/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq
new file mode 100644
index 0000000..e5197c8
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_1.fq
@@ -0,0 +1,4 @@
+ at read1/1
+ATCTGACTGCTGATCATCGTACTGACTGACAGTCATATCGTAAAA
++
+IIIIIIIIIIIIHHHHHHHHHHHHHHHHHHHHHHGGGGGGGGGGG
diff --git a/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq b/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq
new file mode 100644
index 0000000..ce1d249
--- /dev/null
+++ b/ariba/tests/data/assembly_assemble_with_fermilite_fails.reads_2.fq
@@ -0,0 +1,4 @@
+ at read1/2
+TTGTGTGTGTTTTTTTTTTTTTTTTTTTTTTTT
++
+IIIHHHGGFFFFFFFFFFFEEEEEEEEEEEEED
diff --git a/ariba/tests/data/assembly_run_fermilite.expected.fa b/ariba/tests/data/assembly_run_fermilite.expected.fa
new file mode 100644
index 0000000..a763a9b
--- /dev/null
+++ b/ariba/tests/data/assembly_run_fermilite.expected.fa
@@ -0,0 +1,2 @@
+>contig.0
+CTCGCGGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGTGCGCTACCTGCTTAGCCTACGACACGGCAGGAGCCTGCTAGGCCCTGAATAAGTGTCAGCTGATGCGGCTAGCGAAGTACCAACCATGCGCTGAGGTTCAAGGCTGTCCAACCTAGATG
diff --git a/ariba/tests/data/assembly_run_fermilite.expected.log b/ariba/tests/data/assembly_run_fermilite.expected.log
new file mode 100644
index 0000000..eceaa80
--- /dev/null
+++ b/ariba/tests/data/assembly_run_fermilite.expected.log
@@ -0,0 +1,10 @@
+Fermilite assembly stats:
+Min_count Contig_number Mean_length Longest
+4 1 499 499
+8 1 499 499
+12 1 428 428
+16 1 428 428
+20 1 384 384
+25 1 384 384
+30 1 373 373
+Best assembly is from min_count 4
diff --git a/ariba/tests/data/assembly_run_fermilite.reads.fq b/ariba/tests/data/assembly_run_fermilite.reads.fq
new file mode 100644
index 0000000..35acdf7
--- /dev/null
+++ b/ariba/tests/data/assembly_run_fermilite.reads.fq
@@ -0,0 +1,464 @@
+ at 1:1:82:186/1
+GCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:1:82:186/2
+CCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:6:109/1
+GGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:6:109/2
+TCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:1:106/1
+CTCGCGGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:1:106/2
+TCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTTGTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:33:136/1
+TGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:33:136/2
+CAATGGGAGTAGAAGGTCAACCTATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:196:299/1
+CCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTTTAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:196:299/2
+TTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:63:168/1
+CAGAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:63:168/2
+CTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATAATCGTCAGAGCACGATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:7:10:111/1
+TTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCAGAGGGCTAAAGTTTGTAGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:7:10:111/2
+AATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:8:74:178/1
+AGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:8:74:178/2
+GACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATAATCGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:9:84:186/1
+TCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:9:84:186/2
+CCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1:41:144/1
+CCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1:41:144/2
+GTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:2:144:247/1
+ATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:2:144:247/2
+CGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:3:225:329/1
+CTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:3:225:329/2
+TGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:4:237:340/1
+GCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:4:237:340/2
+GGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:5:45:151/1
+GACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:5:45:151/2
+AGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:6:284:386/1
+CGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:6:284:386/2
+GGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:7:305:407/1
+CTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:7:305:407/2
+CTTGAACCTCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:8:213:317/1
+CTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:8:213:317/2
+AGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:9:183:287/1
+GATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:9:183:287/2
+GCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:10:289:393/1
+TCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:10:289:393/2
+CATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:11:296:399/1
+GTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:11:296:399/2
+TCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:12:270:373/1
+GTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:12:270:373/2
+CCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:13:167:271/1
+CTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:13:167:271/2
+TGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:14:43:147/1
+TTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:14:43:147/2
+AGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:15:323:424/1
+TCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGTGCGCTACCTGCTTAGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:15:323:424/2
+CATCTAGGTTGGACAGCCTTGAACCTCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:16:105:207/1
+AGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:16:105:207/2
+GTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:17:237:341/1
+GCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:17:237:341/2
+AGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:18:3:107/1
+CGCGGCTTTAGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:18:3:107/2
+GTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTAGAGTTGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:19:272:374/1
+GTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:19:272:374/2
+GCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:20:251:354/1
+GTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:20:251:354/2
+TTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:21:95:199/1
+CTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:21:95:199/2
+AACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:22:96:199/1
+TCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:22:96:199/2
+AACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:23:94:197/1
+ACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:23:94:197/2
+CACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:24:185:289/1
+TTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:24:185:289/2
+AAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:25:152:256/1
+CGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:25:152:256/2
+GAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:26:285:389/1
+GTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:26:285:389/2
+GTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:27:137:241/1
+TGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:27:137:241/2
+TACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:28:261:365/1
+GGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCGGTGCGTATGCTTGAGTCGGTAATATCGTCCGGACTCATCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:28:261:365/2
+GCTGACACTTATTCAGGGCCTAGCAGGCTCCTGCCGTGTCGTAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:29:12:116/1
+AGCCTGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:29:12:116/2
+CATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:30:107:210/1
+CTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:30:107:210/2
+CGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:31:162:266/1
+AGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTCCCATTGTCTTTGACGCTTTCTGATGTCAGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:31:162:266/2
+GAGTAGGGATGAGTCCGGACGATATTACCGACTCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:32:213:317.dup.2/1
+CTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:32:213:317.dup.2/2
+AGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:33:24:127/1
+TGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:33:24:127/2
+TAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:34:84:189/1
+TCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:34:84:189/2
+CGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:35:40:145/1
+CCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:35:40:145/2
+CGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:36:120:223/1
+TGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:36:120:223/2
+CACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:37:106:211/1
+GCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:37:106:211/2
+ACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:38:98:202/1
+TGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:38:98:202/2
+CGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:39:72:177/1
+AAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCCAACAAGACCTGTTAACATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:39:72:177/2
+ACAGCTGGTCTCCGGCGACTGACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:40:16:120/1
+TGGCCCAATGCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:40:16:120/2
+TCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTTGGATATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:41:308:410/1
+GAGTCGGTAATATCGTCCGGACTCATCCCTACTCTTACAACTTACGTGGTTACGCTTACCCAGAGAAATATGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:41:308:410/2
+AGCCTTGAACCTCAGCGCATGGTTGGTACTTCGCTAGCCGCATCAGCTGACACTTATTCAGGGCCTAGCAGGCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:42:26:129/1
+CCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:42:26:129/2
+AGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:43:130:234/1
+CAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTCTACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:43:130:234/2
+TCAAGCATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:44:52:157/1
+TCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGGCACCAGCTACAACTCTAATTGATATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:44:52:157/2
+GACATCAGAAAGCGTCAAAGACAATGGGAGTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:45:220:323/1
+GCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:45:220:323/2
+AGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:46:125:228/1
+TCCAACAAGACCTGTTAACATACGATGCGGAGGGACTAGAGTCTCATCGTGCTCTGACGATTATATGTTGACCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:46:125:228/2
+ATACGCACCGCCTGAGGACGGGTATCCGGAACACCTATACGCCCTAGGGAGACAGCTGGTCTCCGGCGACTGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:47:210:314/1
+TGTCTTTGACGCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:47:210:314/2
+AGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGGACGATATTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:48:220:324/1
+GCTTTCTGATGTCAGTCGCCGGAGACCAGCTGTCTCCCTAGGGCGTATAGGTGTTCCGGATACCCGTCCTCAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:48:220:324/2
+TAGGCTAAGCAGGTAGCGCACATATTTCTCTGGGTAAGCGTAACCACGTAAGTTGTAAGAGTAGGGATGAGTCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:49:25:128/1
+GCCCTGAGTGGCCCTCCCTTGACTAACTCTGACGCGATCATAGGGCTAAAGTTTGTAGCTCTAAGTCCAACTCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:49:25:128/2
+GTAGAAGGTCAACATATAATCGTCAGAGCACGATGAGACTCTAGTCCCTCCGCATCGTATGTTAACAGGTCTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/assembly_run_fermilite_fail.reads.fq b/ariba/tests/data/assembly_run_fermilite_fail.reads.fq
new file mode 100644
index 0000000..3f18204
--- /dev/null
+++ b/ariba/tests/data/assembly_run_fermilite_fail.reads.fq
@@ -0,0 +1,4 @@
+ at read1
+CATCATCGTCTCATCTGCCA
++
+IIIIIIIIIIIIIIHGGGGG
diff --git a/ariba/tests/data/assembly_run_fermilite_fails.expected.log b/ariba/tests/data/assembly_run_fermilite_fails.expected.log
new file mode 100644
index 0000000..e9575f4
--- /dev/null
+++ b/ariba/tests/data/assembly_run_fermilite_fails.expected.log
@@ -0,0 +1,10 @@
+Fermilite assembly stats:
+Min_count Contig_number Mean_length Longest
+4 0 0 0
+8 0 0 0
+12 0 0 0
+16 0 0 0
+20 0 0 0
+25 0 0 0
+30 0 0 0
+Didn't get any assemblies!
diff --git a/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_coding_metadata.tsv b/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_coding_metadata.tsv
index f1e3583..ef36347 100644
--- a/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_coding_metadata.tsv
+++ b/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_coding_metadata.tsv
@@ -1,11 +1,4 @@
-presence_absence p D2E id1 ref has wild type D (GAT=D, GAA=E)
-presence_absence p S3R id1 ref has variant type R (AGA=R, AGT=S)
-presence_absence p D4E id1 ref has variant type E (GAA=E, GAC=D)
-presence_absence p A5D id1 ref has wild type A (GCG=A)
-variants_only p D2E id1 ref has wild type D (GAT=D, GAA=E)
-variants_only p S3R id1 ref has variant type R (AGA=R, AGT=S)
-variants_only p D4E id1 ref has variant type E (GAA=E, GAC=D)
-variants_only p A5D id1 ref has wild type A (GCG=A)
-non_coding n C3A id1 ref has variant type A
-non_coding n T5A id1 ref has wild type T
-non_coding n C6G id1 ref has variant type G
+presence_absence 1 0 D2E id1 ref has wild type D (GAT=D, GAA=E)
+presence_absence 1 0 S3R id1 ref has variant type R (AGA=R, AGT=S)
+presence_absence 1 0 D4E id1 ref has variant type E (GAA=E, GAC=D)
+presence_absence 1 0 A5D id1 ref has wild type A (GCG=A)
diff --git a/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_non_coding.metadata.tsv b/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_non_coding.metadata.tsv
index f1e3583..d84bf5c 100644
--- a/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_non_coding.metadata.tsv
+++ b/ariba/tests/data/assembly_variants_test_get_one_variant_for_one_contig_non_coding.metadata.tsv
@@ -1,11 +1,3 @@
-presence_absence p D2E id1 ref has wild type D (GAT=D, GAA=E)
-presence_absence p S3R id1 ref has variant type R (AGA=R, AGT=S)
-presence_absence p D4E id1 ref has variant type E (GAA=E, GAC=D)
-presence_absence p A5D id1 ref has wild type A (GCG=A)
-variants_only p D2E id1 ref has wild type D (GAT=D, GAA=E)
-variants_only p S3R id1 ref has variant type R (AGA=R, AGT=S)
-variants_only p D4E id1 ref has variant type E (GAA=E, GAC=D)
-variants_only p A5D id1 ref has wild type A (GCG=A)
-non_coding n C3A id1 ref has variant type A
-non_coding n T5A id1 ref has wild type T
-non_coding n C6G id1 ref has variant type G
+non_coding 0 0 C3A id1 ref has variant type A
+non_coding 0 0 T5A id1 ref has wild type T
+non_coding 0 0 C6G id1 ref has variant type G
diff --git a/ariba/tests/data/cdhit_test_fake_run.out.fa b/ariba/tests/data/cdhit_test_fake_run.out.fa
deleted file mode 100644
index b3cdef0..0000000
--- a/ariba/tests/data/cdhit_test_fake_run.out.fa
+++ /dev/null
@@ -1,40 +0,0 @@
->seq1.x
-TGGGGAATATAGTGGGTACTGTGTGTTGAGCGATTCCCGAGCCCTATGCAGGCTTGTGAA
-GGAGGTCGTGGGATGCTCGTGTCTTCACGAACTTAAAGCCCCTCTTTGGCTTAGGGCCGG
-AGATCGCGTCATAAGTGTAATCTAGCGTTGCAGGTATGGGTAAGGCCATACACTTAGCTC
-TGATGTGATGTGTCAGGTCTGGAGTTTACATATGTCCTGCCACGGTCCTATTTGTTAGAG
-AGGCCTTCAGGCGGCCCCTGCCCGTCGATTCGGCAAACTGCCGAAAACGGAGAGACAGCC
-ACGGTGAATAGAATCTTGGCATACGGTTAATCAGTGCTCTGCTAGTCCTGCTTTCTCTAA
-GCTTATAGAATTCCTGATATATTAAGTAACTTTTCCATTCCATAGACGCGACGAACTGGA
-TACACTCACGTAGGCTCGATCATGAAAGTGAAAGGCGCTCCAAGTTGCGAATTGAAACAA
-AACTCTATCGTAGGGTCGCA
->seq2.x
-TGGGGAATATAGTGGGTACTGTGTGTTGAGCGATTCCCGAGCCCTATGCAGGCTTGTGAA
-GGAGTTCGTGGGATGCTCGTGTCTTCACGAACTTAAAGCCCCTCTTTGGCTTAGGGCCGG
-AGATCGCGTCATAAGTGTAATCTAGCGTTGCAGGTATGGGTAAGGCCATACACTTAGCTC
-TGATGTGATGTGTCAGGTCTGGAGTTTACATATGTCCTGCCACGGTCCTATTTGTTAGAG
-AGGCCTTCAGGCGGCCCCTGCCCGTCGATTCGGCAAACTGCCGAAAACGGAGAGACAGCC
-ACGGTGAATGGAATCTTGGCATACGGTTAATCAGTGCTCTGCTAGTCCTGCTTTCTCTAA
-GCTTATAGAATTCCTGATATATTAAGTAACTTTTCCATTCCATAGACGCGACGAACTGGA
-TACACTCACGTATGCTCGATCATGAAAGTGAAAGGCGCTCCAAGTTGCGAATTGAAACAA
-AACTCTATGTAGGGTCGCA
->seq3.x
-TGGGGAATATAGTGGGTACTGTGTGTTGAGCGATTCCCGAGTTCTATGCAGGCTTGTGAA
-GGAGTTCGTGGGATGCTCGTGTCTTCACGAACTTAAAGCCCCTCTTTGGCTTAGGGCCGG
-AGATCGCGTCATAAGTGTAATCTAGCGTTGCAGGTATGGGTAGGCCATACACTTAGCTCA
-TGATGTGATGTGTCAGGTCTGGAGTTTACATATGTCCTGCCACGGTCCTATTTGTTAGAG
-AGGCCTTCAGGCGGCCCCTGCCCGTCGATTCGGCAAACTGCCGAAAACGGAGAGATAGCC
-ACGGTGAATGGAATCTTGGCATACGGTTAATCAGTGCTCTGCTAGTCCTGCTTTCTCTAA
-GCTTATAGAATTCCTGATATATTAAGTAACTTTTCCATTCCATAGACGCGACGAACTGGA
-TACACTCACGTATGCTCGATCATGAAAGTGAAAGGCGCTCCAAGATGCGAATTGAAACAA
-AACTCTATGTAGGGTCGCA
->seq4.x
-CAAGGGCGGATTCGAACGGGTAACAGGGATCTGATTGGCTCCGGCCAGCTGGTGGATATC
-TGCATCCGTTGACCCACCAACTTTAGCAGTATAGACCCTAAACTGGCATGGTGCCCTTTT
-TATATCCCGATGCATCTGGAGAAACCGTCAGGACCTCTTAAGCCCCGTGGAGAGCCAAAC
-TTCCAACCACGTCAAGGCAACCTTGGTTTAGCACAGGGCTCCCAGTGGGTGTAAGGGATG
-AACACTACCCGGCCCACCGTCGATTTAGCCCTAAATGGTCTATTGCTCACGGGTAGCACA
-CAAGTAATAAAAACGTATTCAGCTCGAGTCAGCGTCCAGCCATTTTACTTTGCGTCATCG
-AGGGGTAGTGCCTCCGAGAATCAAGGTTTGATTATACTAAACGGAGGGGCCTACCACTCA
-GCCAGTCTTTGCATCGTCCATTCCCGCCGTTTATGGGTCACTATTCATTCGGAATTTGGA
-TGCGGTCAACAAGTCCAGGT
diff --git a/ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in b/ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in
new file mode 100644
index 0000000..1de28ac
--- /dev/null
+++ b/ariba/tests/data/cdhit_test_get_clusters_from_bak_file.in
@@ -0,0 +1,5 @@
+0 500nt, >seq1... *
+2 500nt, >seq5... *
+0 499nt, >seq2... at +/99.40%
+0 499nt, >seq3... at +/98.40%
+1 500nt, >seq4... *
diff --git a/ariba/tests/data/cdhit_test_get_ids.fa b/ariba/tests/data/cdhit_test_get_ids.fa
deleted file mode 100644
index f201239..0000000
--- a/ariba/tests/data/cdhit_test_get_ids.fa
+++ /dev/null
@@ -1,6 +0,0 @@
->id1
-A
->id2
-G
->id3
-T
diff --git a/ariba/tests/data/cdhit_test_parse_cluster_info_file.infile b/ariba/tests/data/cdhit_test_parse_cluster_info_file.infile
deleted file mode 100644
index 548e060..0000000
--- a/ariba/tests/data/cdhit_test_parse_cluster_info_file.infile
+++ /dev/null
@@ -1,6 +0,0 @@
-0 500aa, >seq1... *
-0 499aa, >seq2... at 99.40%
-0 499aa, >seq3... at 98.40%
-1 500aa, >seq4... *
-2 300aa, >seq5... at 90.42%
-2 301aa, >seq6... *
diff --git a/ariba/tests/data/cdhit_test_rename_clusters.expected.fa b/ariba/tests/data/cdhit_test_rename_clusters.expected.fa
deleted file mode 100644
index bc44a99..0000000
--- a/ariba/tests/data/cdhit_test_rename_clusters.expected.fa
+++ /dev/null
@@ -1,6 +0,0 @@
->seq.x
-AGCT
->seq.x.2
-CCC
->seq4.x
-AAA
diff --git a/ariba/tests/data/cdhit_test_rename_clusters.in.fa b/ariba/tests/data/cdhit_test_rename_clusters.in.fa
deleted file mode 100644
index 614c0bd..0000000
--- a/ariba/tests/data/cdhit_test_rename_clusters.in.fa
+++ /dev/null
@@ -1,6 +0,0 @@
->seq.foo
-AGCT
->seq.bar
-CCC
->seq4.eggs
-AAA
diff --git a/ariba/tests/data/cdhit_test_run.out.fa b/ariba/tests/data/cdhit_test_run.out.fa
deleted file mode 100644
index 74d8f08..0000000
--- a/ariba/tests/data/cdhit_test_run.out.fa
+++ /dev/null
@@ -1,20 +0,0 @@
->seq1.x
-TGGGGAATATAGTGGGTACTGTGTGTTGAGCGATTCCCGAGCCCTATGCAGGCTTGTGAA
-GGAGGTCGTGGGATGCTCGTGTCTTCACGAACTTAAAGCCCCTCTTTGGCTTAGGGCCGG
-AGATCGCGTCATAAGTGTAATCTAGCGTTGCAGGTATGGGTAAGGCCATACACTTAGCTC
-TGATGTGATGTGTCAGGTCTGGAGTTTACATATGTCCTGCCACGGTCCTATTTGTTAGAG
-AGGCCTTCAGGCGGCCCCTGCCCGTCGATTCGGCAAACTGCCGAAAACGGAGAGACAGCC
-ACGGTGAATAGAATCTTGGCATACGGTTAATCAGTGCTCTGCTAGTCCTGCTTTCTCTAA
-GCTTATAGAATTCCTGATATATTAAGTAACTTTTCCATTCCATAGACGCGACGAACTGGA
-TACACTCACGTAGGCTCGATCATGAAAGTGAAAGGCGCTCCAAGTTGCGAATTGAAACAA
-AACTCTATCGTAGGGTCGCA
->seq4.x
-CAAGGGCGGATTCGAACGGGTAACAGGGATCTGATTGGCTCCGGCCAGCTGGTGGATATC
-TGCATCCGTTGACCCACCAACTTTAGCAGTATAGACCCTAAACTGGCATGGTGCCCTTTT
-TATATCCCGATGCATCTGGAGAAACCGTCAGGACCTCTTAAGCCCCGTGGAGAGCCAAAC
-TTCCAACCACGTCAAGGCAACCTTGGTTTAGCACAGGGCTCCCAGTGGGTGTAAGGGATG
-AACACTACCCGGCCCACCGTCGATTTAGCCCTAAATGGTCTATTGCTCACGGGTAGCACA
-CAAGTAATAAAAACGTATTCAGCTCGAGTCAGCGTCCAGCCATTTTACTTTGCGTCATCG
-AGGGGTAGTGCCTCCGAGAATCAAGGTTTGATTATACTAAACGGAGGGGCCTACCACTCA
-GCCAGTCTTTGCATCGTCCATTCCCGCCGTTTATGGGTCACTATTCATTCGGAATTTGGA
-TGCGGTCAACAAGTCCAGGT
diff --git a/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.out.fa b/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.out.fa
deleted file mode 100644
index 424f9c3..0000000
--- a/ariba/tests/data/cdhit_test_run_get_clusters_from_dict.out.fa
+++ /dev/null
@@ -1,4 +0,0 @@
->seq1.x
-ACGT
->seq3.x
-CCCC
diff --git a/ariba/tests/data/cluster_test_full_run_assembly_fail.noncoding.fa b/ariba/tests/data/cluster_test_full_run_assembly_fail.in.fa
similarity index 100%
copy from ariba/tests/data/cluster_test_full_run_assembly_fail.noncoding.fa
copy to ariba/tests/data/cluster_test_full_run_assembly_fail.in.fa
diff --git a/ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv b/ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv
new file mode 100644
index 0000000..a5e890a
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_assembly_fail.in.tsv
@@ -0,0 +1 @@
+noncoding_ref_seq 1 0 . . .
diff --git a/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa b/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa
new file mode 100644
index 0000000..bed4dd9
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.fa
@@ -0,0 +1,4 @@
+>presence_absence_gene1
+ATGAACCCCGGGGTTTTTTAA
+>presence_absence_gene2
+ATGAACCCCGGGGTTTTTTAA
diff --git a/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv b/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv
new file mode 100644
index 0000000..347b8e0
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_choose_ref_fail.in.tsv
@@ -0,0 +1,2 @@
+presence_absence_gene1 1 0 . . .
+presence_absence_gene2 1 0 . . .
diff --git a/ariba/tests/data/cluster_test_full_run_choose_ref_fail.presence_absence.fa b/ariba/tests/data/cluster_test_full_run_choose_ref_fail.presence_absence.fa
deleted file mode 100644
index 09fa61e..0000000
--- a/ariba/tests/data/cluster_test_full_run_choose_ref_fail.presence_absence.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->presence_absence_gene
-ATGAACCCCGGGGTTTTTTAA
diff --git a/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq b/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq
index 022d4f4..9e56191 100644
--- a/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq
+++ b/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_1.fq
@@ -1,4 +1,212 @@
- at read1/1
-CACTGACTTCACTTACTATCTACTGAATATACTTATCATCTACTCGATGCATGCATGCA
+ at 1:1:12:106/1
+CACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACA
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:24:117/1
+ACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:20:112/1
+AATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:11:103/1
+TCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:21:117/1
+ATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:45:139/1
+TCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:7:46:141/1
+CATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:8:23:118/1
+AACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:9:16:109/1
+TGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:10:26:120/1
+TTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:11:43:137/1
+GTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:12:15:107/1
+GTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:13:20:113/1
+AATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:14:18:110/1
+TAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:15:17:113/1
+GTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:16:21:114/1
+ATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:17:50:143/1
+TTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:18:13:105/1
+ACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:19:19:115/1
+AAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:20:33:129/1
+AAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:21:14:109/1
+CGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:22:12:106.dup.2/1
+CACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:23:2:96/1
+CTCGCCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:24:23:118.dup.2/1
+AACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:25:30:124/1
+TCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:26:41:135/1
+CCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:27:26:121/1
+TTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:28:33:126/1
+AAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:29:27:120/1
+TAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:30:21:114.dup.2/1
+ATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:31:48:142/1
+TCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:32:6:99/1
+CCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:33:37:130/1
+AAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:34:37:131/1
+AAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:35:42:136/1
+CGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:36:2:96.dup.2/1
+CTCGCCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:37:12:107/1
+CACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:38:18:112/1
+TAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:39:1:93/1
+GCTCGCCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:40:36:130/1
+AAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:41:12:104/1
+CACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:42:2:94/1
+CTCGCCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:43:49:140/1
+CTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCACCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:44:2:95/1
+CTCGCCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:45:31:126/1
+CAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:46:36:131/1
+AAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:47:9:102/1
+GCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:48:35:128/1
+GAAAGTCCGTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:49:51:145/1
+TTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCACCTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:50:46:140/1
+CATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:51:6:100/1
+CCCGCTCACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:52:13:106/1
+ACGTGTAAATAACTTAGTCAAAGAAAGTCCGTTCATCTTTTTCATACCCTAAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:53:43:135/1
+GTTCATCTTTTTCATACCCTAAACATTAAGCTGGGTTTCGGGGGCTATGCTATTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq b/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq
index 022d4f4..af4519b 100644
--- a/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq
+++ b/ariba/tests/data/cluster_test_full_run_choose_ref_fail/reads_2.fq
@@ -1,4 +1,212 @@
- at read1/1
-CACTGACTTCACTTACTATCTACTGAATATACTTATCATCTACTCGATGCATGCATGCA
+ at 1:1:12:106/2
+CGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTT
+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:24:117/2
+AGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:20:112/2
+TGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:11:103/2
+TGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:21:117/2
+AGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:45:139/2
+CAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:7:46:141/2
+ACCAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:8:23:118/2
+TAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:9:16:109/2
+GAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:10:26:120/2
+AGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:11:43:137/2
+AGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:12:15:107/2
+ACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:13:20:113/2
+ATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:14:18:110/2
+TGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:15:17:113/2
+ATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:16:21:114/2
+AATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:17:50:143/2
+ACACCAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:18:13:105/2
+GGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:19:19:115/2
+AAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:20:33:129/2
+GATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:21:14:109/2
+GAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:22:12:106.dup.2/2
+CGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:23:2:96/2
+CAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGTGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:24:23:118.dup.2/2
+TAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:25:30:124/2
+CCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:26:41:135/2
+GTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:27:26:121/2
+GAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:28:33:126/2
+TTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:29:27:120/2
+AGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:30:21:114.dup.2/2
+AATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:31:48:142/2
+CACCAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:32:6:99/2
+AAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:33:37:130/2
+TGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:34:37:131/2
+ATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:35:42:136/2
+GGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:36:2:96.dup.2/2
+CAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGTGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:37:12:107/2
+ACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:38:18:112/2
+TGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:39:1:93/2
+TCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGTGGGAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:40:36:130/2
+TGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:41:12:104/2
+GTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:42:2:94/2
+GTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGTGGGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:43:49:140/2
+CCAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:44:2:95/2
+AGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGTGGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:45:31:126/2
+TTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:46:36:131/2
+ATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:47:9:102/2
+GGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:48:35:128/2
+ATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCGGCCCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:49:51:145/2
+AAACACCAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:50:46:140/2
+CCAAGGTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:51:6:100/2
+GAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTTACAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:52:13:106/2
+CGGTGGGAAGCAGTCACATGGTCATCGGCCCTCTTCGATTGTGGCCTGGCTTGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:53:43:135/2
+GTCCATGATTTCCTGAGTAGAAATGTGAACGGTGGGAAGCAGTCACATGGTCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/cluster_test_full_run_assembly_fail.noncoding.fa b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.fa
similarity index 100%
copy from ariba/tests/data/cluster_test_full_run_assembly_fail.noncoding.fa
copy to ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.fa
diff --git a/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv
new file mode 100644
index 0000000..a5e890a
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering.in.tsv
@@ -0,0 +1 @@
+noncoding_ref_seq 1 0 . . .
diff --git a/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq
new file mode 100644
index 0000000..8c9580e
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_1.fq
@@ -0,0 +1,4 @@
+ at read1/1
+AAAAAAAAAAAAAAAAAAAAAAAAAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq
new file mode 100644
index 0000000..8c9580e
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/reads_2.fq
@@ -0,0 +1,4 @@
+ at read1/1
+AAAAAAAAAAAAAAAAAAAAAAAAAGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/cluster_test_full_run_assembly_fail.noncoding.fa b/ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/references.fa
similarity index 100%
rename from ariba/tests/data/cluster_test_full_run_assembly_fail.noncoding.fa
rename to ariba/tests/data/cluster_test_full_run_no_reads_after_filtering/references.fa
diff --git a/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa
new file mode 100644
index 0000000..06e6122
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.fa
@@ -0,0 +1,3 @@
+>gene
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
+ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
diff --git a/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv
new file mode 100644
index 0000000..b298d9c
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.metadata.tsv
@@ -0,0 +1 @@
+gene 1 0 . . Generic description of gene
diff --git a/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_to_make_reads.fa b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_to_make_reads.fa
new file mode 100644
index 0000000..394853b
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch.ref_to_make_reads.fa
@@ -0,0 +1,7 @@
+>gene
+GAGCCAGATCGTAGGAGAGCGTGTCCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAA
+TAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGAC
+ATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
+ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAATGATGCATTAAGTTCGGTGAGCAC
+GACGCCCGAGGCAGTCTGAGCATTCAAAGTTGGCCTGAGCCAGATCGTAGGAGAGCGTGT
+CCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAA
diff --git a/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq
new file mode 100644
index 0000000..2abf312
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_1.fq
@@ -0,0 +1,224 @@
+ at gene:1:71:181/1
+CAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:2:85:195/1
+TCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:3:43:154/1
+AAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:4:81:189/1
+AACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:5:69:180/1
+GCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:6:124:234/1
+CGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:7:76:185/1
+CTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:8:98:208/1
+CGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:9:135:247/1
+GATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAATGATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:10:13:122/1
+AGGAGAGCGTGTCCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:11:82:191/1
+ACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:12:103:213/1
+ACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:13:72:182/1
+AATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:14:116:226/1
+GAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:15:70:178/1
+CCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:16:45:155/1
+AAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:17:75:185/1
+TCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:18:51:162/1
+TACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:19:53:161/1
+CAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:20:116:225/1
+GAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:21:46:155/1
+AACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:22:59:168/1
+AATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:23:22:132/1
+TGTCCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:24:38:148/1
+TTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:25:35:143/1
+AGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:26:94:205/1
+TCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:27:30:141/1
+TCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:28:125:236/1
+GTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:29:71:181.dup.2/1
+CAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:30:16:126/1
+AGAGCGTGTCCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:31:73:183/1
+ATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:32:131:241/1
+AAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:33:115:226/1
+TGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:34:59:168.dup.2/1
+AATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:35:84:195/1
+GTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:36:95:206/1
+CACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:37:3:113/1
+GCCAGATCGTAGGAGAGCGTGTCCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:38:33:143/1
+ACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:39:9:117/1
+TCGTAGGAGAGCGTGTCCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:40:107:217/1
+GAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:41:83:192/1
+CGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:42:135:246/1
+GATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAATGATGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:43:130:238/1
+GAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:44:120:229/1
+CATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:45:59:168.dup.3/1
+AATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:46:92:202/1
+TTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:47:73:183.dup.2/1
+ATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:48:34:144/1
+CAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:49:72:182.dup.2/1
+AATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:50:86:196/1
+CGCGGATTTCACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:51:124:232/1
+CGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:52:30:138/1
+TCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCCTGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:53:25:134/1
+CCCGGTCCACAGCTTTTGAAAAACGATACAGGTGAATAAGCGCGGCCAATTCTCAGAACGTCGCGGATTTCACCGGTCACGAGAGGTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:54:110:220/1
+GTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:55:95:205/1
+CACCGGTCACGAGAGGTTCCTGAGACATGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:56:122:231/1
+TGCGTCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCATATTAACGGCATTAGCGCGTGGGAAAGCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq
new file mode 100644
index 0000000..cbf237b
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/reads_2.fq
@@ -0,0 +1,224 @@
+ at gene:1:71:181/2
+ACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:2:85:195/2
+TCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:3:43:154/2
+GTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:4:81:189/2
+TCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:5:69:180/2
+CTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:6:124:234/2
+TTTTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:7:76:185/2
+GCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:8:98:208/2
+CGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:9:135:247/2
+TTCACCTGTATCGTTTTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:10:13:122/2
+CCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTCATCGCTTCGCGACGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:11:82:191/2
+GCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:12:103:213/2
+GGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:13:72:182/2
+AACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:14:116:226/2
+AAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:15:70:178/2
+TTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:16:45:155/2
+CGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:17:75:185/2
+GCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:18:51:162/2
+CCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:19:53:161/2
+CTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:20:116:225/2
+AGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:21:46:155/2
+CGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:22:59:168/2
+AGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:23:22:132/2
+CATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTCATCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:24:38:148/2
+CTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:25:35:143/2
+CGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:26:94:205/2
+TCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:27:30:141/2
+AACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:28:125:236/2
+CGTTTTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:29:71:181.dup.2/2
+ACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:30:16:126/2
+TATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTCATCGCTTCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:31:73:183/2
+CAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:32:131:241/2
+TGTATCGTTTTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:33:115:226/2
+AAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:34:59:168.dup.2/2
+AGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:35:84:195/2
+TCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:36:95:206/2
+CTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:37:3:113/2
+CCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTCATCGCTTCGCGACGCATGTCTCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:38:33:143/2
+CGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:39:9:117/2
+CTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTCATCGCTTCGCGACGCATGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:40:107:217/2
+ACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:41:83:192/2
+GGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:42:135:246/2
+TCACCTGTATCGTTTTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:43:130:238/2
+ATCGTTTTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:44:120:229/2
+CAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:45:59:168.dup.3/2
+AGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:46:92:202/2
+CCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:47:73:183.dup.2/2
+CAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:48:34:144/2
+CCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:49:72:182.dup.2/2
+AACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:50:86:196/2
+ATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCTTTCCCACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:51:124:232/2
+TTTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:52:30:138/2
+TTAATGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:53:25:134/2
+TGCATCATTATTCCATGCTTTCCCACGCGCTAATGCCGTTAATATGGCTAATGTTGGTGCTCGCGCGTTCGGTCGCTTCATGGGTCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:54:110:220/2
+TGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:55:95:205/2
+TCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCGAACTTAATGCATCATTATTCCATGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at gene:56:122:231/2
+TTCAAAAGCTGTGGACCGGGACACGCTCTCCTACGATCTGGCTCAGGCCAACTTTGAATGCTCAGACTGCCTCGGGCGTCGTGCTCACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa
new file mode 100644
index 0000000..06e6122
--- /dev/null
+++ b/ariba/tests/data/cluster_test_full_run_ok_gene_start_mismatch/references.fa
@@ -0,0 +1,3 @@
+>gene
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
+ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
diff --git a/ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv b/ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv
index 97cfd32..ab4e2bd 100644
--- a/ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv
+++ b/ariba/tests/data/cluster_test_full_run_ok_non_coding.metadata.tsv
@@ -1,5 +1,6 @@
-noncoding1 . . . generic description of noncoding1
-noncoding1 n A6G . variant in ref and reads so should report
-noncoding1 n G9T . wild type in ref and reads
-noncoding1 n A14T . ref has wild type, reads has variant so should report
-noncoding1 n A40C . ref has variant, reads has wild type
+noncoding1 0 0 . . generic description of noncoding1
+noncoding1 0 0 A6G . variant in ref and reads so should report
+noncoding1 0 0 G9T . wild type in ref and reads
+noncoding1 0 0 A14T . ref has wild type, reads has variant so should report
+noncoding1 0 0 A40C . ref has variant, reads has wild type
+noncoding2 0 0 . . generic description of noncoding2
diff --git a/ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv b/ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv
index bc5a3d9..f1d978a 100644
--- a/ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv
+++ b/ariba/tests/data/cluster_test_full_run_ok_presence_absence.metadata.tsv
@@ -1,4 +1,5 @@
-presence_absence1 . . . Generic description of presence_absence1
-presence_absence1 p R3S . Ref and assembly have wild type
-presence_absence1 p A10V . Ref has wild, reads have variant so report
-presence_absence1 p I5A . Ref and reads have variant so report
+presence_absence1 1 0 . . Generic description of presence_absence1
+presence_absence1 1 0 R3S . Ref and assembly have wild type
+presence_absence1 1 0 A10V . Ref has wild, reads have variant so report
+presence_absence1 1 0 I5A . Ref and reads have variant so report
+presence_absence2 1 0 . . Generic description of presence_absence2
diff --git a/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.always_report.metadata.tsv b/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.always_report.metadata.tsv
index 7e193f6..9bda1a2 100644
--- a/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.always_report.metadata.tsv
+++ b/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.always_report.metadata.tsv
@@ -1,2 +1,3 @@
-variants_only1 . . . Generic description of variants_only1
-variants_only1 p R3S . Ref and assembly have wild type, but always report anyway
+variants_only1 1 1 . . Generic description of variants_only1
+variants_only1 1 1 R3S . Ref and assembly have wild type, but always report anyway
+variants_only2 1 1 . . Generic description of variants_only2
diff --git a/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv b/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv
index de14a1b..81998d4 100644
--- a/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv
+++ b/ariba/tests/data/cluster_test_full_run_ok_variants_only.not_present.metadata.tsv
@@ -1,2 +1,3 @@
-variants_only1 . . . Generic description of variants_only1
-variants_only1 p R3S . Ref and assembly have wild type, so do not report
+variants_only1 1 1 . . Generic description of variants_only1
+variants_only1 1 1 R3S . Ref and assembly have wild type, so do not report
+variants_only2 1 1 . . Generic description of variants_only2
diff --git a/ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv b/ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv
index 621f2c9..ee587f1 100644
--- a/ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv
+++ b/ariba/tests/data/cluster_test_full_run_ok_variants_only.present.metadata.tsv
@@ -1,3 +1,4 @@
-variants_only1 . . . Generic description of variants_only1
-variants_only1 p R3S . Ref and assembly have wild type
-variants_only1 p I5A . Ref and reads have variant so report
+variants_only1 1 1 . . Generic description of variants_only1
+variants_only1 1 1 R3S . Ref and assembly have wild type
+variants_only1 1 1 I5A . Ref and reads have variant so report
+variants_only2 1 1 . . Generic description of variants_only2
diff --git a/ariba/tests/data/cluster_test_init_refdata.tsv b/ariba/tests/data/cluster_test_init_refdata.tsv
new file mode 100644
index 0000000..ebdea5d
--- /dev/null
+++ b/ariba/tests/data/cluster_test_init_refdata.tsv
@@ -0,0 +1 @@
+seq1 1 0 . . .
diff --git a/ariba/tests/data/cluster_test_number_of_reads_for_assembly.ref.fa b/ariba/tests/data/cluster_test_number_of_reads_for_assembly.ref.fa
deleted file mode 100644
index 1548184..0000000
--- a/ariba/tests/data/cluster_test_number_of_reads_for_assembly.ref.fa
+++ /dev/null
@@ -1,3 +0,0 @@
->ref
-TTTCTCGGTACCTCATCACGAGCCTCGTCCATACGCGTACCTTTAGAGGTTATGGACGTA
-TGGCTAGTACGTTGATGACAAAGTTGATGTCGGAGCCTAT
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads.bam b/ariba/tests/data/clusters_test_bam_to_clusters_reads.bam
deleted file mode 100644
index b18438f..0000000
Binary files a/ariba/tests/data/clusters_test_bam_to_clusters_reads.bam and /dev/null differ
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa b/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa
deleted file mode 100644
index 4cb32f6..0000000
--- a/ariba/tests/data/clusters_test_bam_to_clusters_reads.db.fa
+++ /dev/null
@@ -1,54 +0,0 @@
->ref1
-ATCGCAATAAGCTTGAACCAATCGAGCACCTGATTTTATGGTACTGTAGGTAAAAAACGG
-GGCCCTTTTACCCGGCTCTCATCGGCGAAATTATTCCTAGTCGCTGGCCGGAACGCACAA
-GTATATGGTGGGTCGTCATGGAAGCAGTACCTATCAGCATAGCTGCACTACCCTACATGC
-CGCCGGCTTTGGGTTCGTCGTTATAGATGAAGGGTTGACGGAGGTGGTGCGATGTCAGAC
-CCCTCCCTTTGGAGAATCCCCCCGAGGTTAACGTCTCCAAAATTGAGTGTAGCCGCTCAC
-GGTTCTAGAAACGCCGACTAGATAAATCGGAGGATGTGTTGGTGTCACGACCTCGCGTCT
-AACTCTAGGGCGTGCCCCTCATGGATTTGAATACCACATGGCGACATAATATACTTTCTA
-TATGCGGTTACTTCACGCACTGTAATTTAAGGACAAAGCACATTAGCGAGTACTGCTGAG
-TAAAGCTTTGCAAGGCGATCACGTAGCACTCATTGGAGCCGCATACTCGTACAGAAGCGG
-CGGCTTAACGGCACTTTTCCACGCAAGTGTTGCTCTGAAAAGTTGGGACTTATGTCTTCC
-AAAAAAAGTAAGCTCAGACAAGTAATTCGACAGCCTTTTGCCGTTGCGGCAACTTTCGGT
-GTGCCACATATCTGACTCTCGTAACAGACGTTGTTGGAAATTTTCTTCTTAGACAACACA
-ACAATCCCGAGCTGTAAGACAGTCCGCTTGTTTCATTAGGACGATGGTCACAGGGCGTAT
-GCACGAACCACTCTGTCTCGACAAAATATTTAGGACATCTACGTACCCTAATTGAAACAC
-GATACTCGCAAAACGAAAAACCCCCCTAGAGGATGCGAATTTGTGTTGGGGCACTCGAAG
-CAGGCTGCTGAGCAGGCAGAAGGGCATCGCTATGTATCTGCTTGTACCATACGATAAGGA
-ACAATGGGCGACACTGTCCATCATCGCACCAACCAGGATA
->ref2
-TGCACTAGCCTCATAGCTCGCTATCGACACGCTCTTGAAGATTCGCGTGAGTACCATTGC
-GGGGAGTTACGAGTCCACCCAGTTGCTGACGGACTGTCCTAGGCGTTTCCCGAAATGTCT
-TCGAGCTAGTTTGAGGGATTTGAATCACATCGATCGATACTCAACTCAAGAATAGGCCAA
-CTTTGGATGATATCGGGTGGGAGCTTTCCGCAGCGGAAACCAGCTGTACCTTACGGCGAC
-ACGGTTCCAAGTCTGATGCCCCAATTCTGCGATTAGGAGCAATGCCGGCATCACACCTTG
-ACTTATGGTGAACACTGCGCTTGCCGCTGTGCAGCAAATATCTCAAAGGAAAGTACCTAG
-TACGGCTATTGCCGTTCTAGGCCCGCTGGGTATTTATCTGTAGGCATGTCTACATTAGCT
-AGGAAGTAACGTCTTAGCCTCCAAGATACCGGTCCAGATACGATTTCACACACGGACTAC
-TCGAAAGTTCGTCTGCCTACGATTCTTTGGCCGAGCTTGTGGGGGAGGCCAGACTATTAG
-TTTAGGAGAGGTGGGGCTTCATAAAAAATCCCTCTCGGCAGGGTGGCCTCGCTTTAGGAC
-AATGTGGATCAAGGTTCGATCCAAATCAATACTTTGGGCTCGCCGCCCTTGCGGCTGATG
-GATCCCTCTCACGCTGAATGTGCAGCTACTTCTGCTACTGCAACTTGAGGGGAACTCCCG
-TATGACCAGTCGGATGGAGAGTACTTACTAGATGTACATACGCCGTTTCAACTCATCTAT
-GCTGTTCCCACCGTAAATGTCAACTCTCAGCTATTCCTCTAGTCTAACTACCACGGGCCC
-GTGGGCGCGGATGTCCTCTGTCCGCTCAGGGTTTCGGTAGATACAGTGGCCTTTTTCTCG
-TATTGACTTAGATGACTCAAGAACGTTAAATGTCATTCTCTATTGATGTTGAGAAGCAAA
-TAGAGACCTCAATGATTCTTCCGAGACGGTAGGCTCCTAA
->ref3
-GGGGGAGTGCGTTCGCTAGGAGCAGGCACAATTCTCTAGGTTCGATGTACTGCAATCTAA
-TGGCCTTACGACTTCCACCTATGCAGCCTCGGCCGAAGAACCACCAGATCACGGGTTGAG
-CGGTATACACGAAGGGAAAGTCATTGGTCTTGAGCCCATAGGAGCTCACAGGGCAGAATG
-CCTATATCTCCCAAGCCGACTAGGCTGACGAGAATTGGTTACCCGACAAATTTTCGACCC
-ATTGTTGGTGTGCGAACGATAAAATGCAGCAACATATATTTAACTCAGGCTACCGTTTCG
-TGATAACGTGCCCTTAGCCTAAAGTTTAATGTCTACTCGCAGTATGCCCCGTTTTTCTGG
-GGGATTCTGCATTTGGAAGGCTATGGGGAAGAGAAGTTAATGCATTTCTATGAGAAAGAT
-ACGGAAGGCTGCCTGAGCCAGAATATCTTTAGTTTATGTCTCGAGGAACCGGCGGTTCAT
-TCTGGCGCTTATAAATCTTTAGCTCAAAACAATGCTTAACGTTAATGGGTGATGTAGGTG
-GCGACATGATGCACTACGCTAGGAAGCATGATGTCGACGAGTGCTTCAAAAAGGGCCCCG
-TAGCCACCATGAATTACTAACTTCCCATCCCTTAGACCCGCATTGTTAGTCCACAAAATA
-CACGTGAATAGAGGTCAGATTCAGTTGGATTGGTGTTGCCGGTTGGTCGTCATAGTGGTC
-TGACCTGTTCCCGCCACTACAGTGACCCTAACCACAGCGGGTGATGTTCGTTATATTTAT
-GACGAACTCAAAGTTCAGCAACAGCACACCCTGCGTGTGCTAAAATTTCCGCTTCAGGGT
-CTGCGAGCGAGGAAACACTCAGGGGCGGCTTACCCGTCCGCCGGCAGGTCCGTACGGGCG
-ATAGCTAAGAAGCCACCGCGTGACTGTCAATATCATGCATGATAACGGTTGCGCCGTCAG
-TCACGAATAGCGGACCATCTCAGCGAAACCTGACTTCCGC
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads.read_store.gz b/ariba/tests/data/clusters_test_bam_to_clusters_reads.read_store.gz
deleted file mode 100644
index 02b0e0f..0000000
Binary files a/ariba/tests/data/clusters_test_bam_to_clusters_reads.read_store.gz and /dev/null differ
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads.reads_1.fq b/ariba/tests/data/clusters_test_bam_to_clusters_reads.reads_1.fq
deleted file mode 100644
index c1510f4..0000000
--- a/ariba/tests/data/clusters_test_bam_to_clusters_reads.reads_1.fq
+++ /dev/null
@@ -1,8 +0,0 @@
- at read1/1
-GTATATGGTGGGTCGTCATGGAAGCAGTACCTATCAGCATAGCTGCACTACCCTACATGC
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at read2/1
-CGGCTTAACGGCACTTTTCCACGCAAGTGTTGCTCTGAAAAGTTGGGACTTATGTCTTCC
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads.reads_2.fq b/ariba/tests/data/clusters_test_bam_to_clusters_reads.reads_2.fq
deleted file mode 100644
index 532fbc9..0000000
--- a/ariba/tests/data/clusters_test_bam_to_clusters_reads.reads_2.fq
+++ /dev/null
@@ -1,8 +0,0 @@
- at read1/2
-CTTCGAGTGCCCCAACACAAATTCGCATCCTCTAGGGGGGTTTTTCGTTTTGCGAGTATC
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at read2/2
-GGGCCCGTGGTAGTTAGACTAGAGGAATAGCTGAGAGTTGACATTTACGGTGGGAACAGC
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map.bam b/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map.bam
deleted file mode 100644
index 89be29e..0000000
Binary files a/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map.bam and /dev/null differ
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map_1.fq b/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map_1.fq
deleted file mode 100644
index b04e523..0000000
--- a/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map_1.fq
+++ /dev/null
@@ -1,8 +0,0 @@
- at read1/1
-CACAACCACAACACACACACACACTCATTTTTTTTTTTTTTTTCACACACACAACCAACA
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at read2/1
-TGTGTGTGTGTGTGTGTGTTTTTTTTTTTTTTTTTTTTTTTAAAAAAAAAAAAAATCTCT
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map_2.fq b/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map_2.fq
deleted file mode 100644
index 2e57937..0000000
--- a/ariba/tests/data/clusters_test_bam_to_clusters_reads_no_reads_map_2.fq
+++ /dev/null
@@ -1,8 +0,0 @@
- at read1/2
-TTTCTCATACTATATATATATATATATATATATATATTAATATATATTAATTATATATAA
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
- at read2/2
-GCGCGCGCGCGCGCCGGCGGCCGCGCGCGCGCGGCGCGGGGGGGGGGGGGGGGGGGGGAA
-+
-IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/clusters_test_dummy_db.tsv b/ariba/tests/data/clusters_test_dummy_db.tsv
new file mode 100644
index 0000000..996f619
--- /dev/null
+++ b/ariba/tests/data/clusters_test_dummy_db.tsv
@@ -0,0 +1 @@
+x 0 0 . . .
diff --git a/ariba/tests/data/clusters_test_load_minimap_files.cluster2representative b/ariba/tests/data/clusters_test_load_minimap_files.cluster2representative
new file mode 100644
index 0000000..2ee81d0
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_files.cluster2representative
@@ -0,0 +1,2 @@
+1 ref2
+2 ref42
diff --git a/ariba/tests/data/clusters_test_load_minimap_files.clusterCounts b/ariba/tests/data/clusters_test_load_minimap_files.clusterCounts
new file mode 100644
index 0000000..dfba60a
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_files.clusterCounts
@@ -0,0 +1,2 @@
+1 42 4242
+2 43 4343
diff --git a/ariba/tests/data/clusters_test_load_minimap_files.insertHistogram b/ariba/tests/data/clusters_test_load_minimap_files.insertHistogram
new file mode 100644
index 0000000..9d2e2f2
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_files.insertHistogram
@@ -0,0 +1,7 @@
+85 1
+86 2
+90 4
+91 6
+97 10
+100 7
+111 3
diff --git a/ariba/tests/data/clusters_test_load_minimap_files.properPairs b/ariba/tests/data/clusters_test_load_minimap_files.properPairs
new file mode 100644
index 0000000..3c3b272
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_files.properPairs
@@ -0,0 +1 @@
+42424242
diff --git a/ariba/tests/data/clusters_test_load_minimap_insert_histogram.in b/ariba/tests/data/clusters_test_load_minimap_insert_histogram.in
new file mode 100644
index 0000000..9d2e2f2
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_insert_histogram.in
@@ -0,0 +1,7 @@
+85 1
+86 2
+90 4
+91 6
+97 10
+100 7
+111 3
diff --git a/ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in b/ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in
new file mode 100644
index 0000000..2ee81d0
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_out_cluster2representative.in
@@ -0,0 +1,2 @@
+1 ref2
+2 ref42
diff --git a/ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in b/ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in
new file mode 100644
index 0000000..dfba60a
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_out_cluster_counts.in
@@ -0,0 +1,2 @@
+1 42 4242
+2 43 4343
diff --git a/ariba/tests/data/clusters_test_load_minimap_proper_pairs.in b/ariba/tests/data/clusters_test_load_minimap_proper_pairs.in
new file mode 100644
index 0000000..3c3b272
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_minimap_proper_pairs.in
@@ -0,0 +1 @@
+42424242
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/info.txt b/ariba/tests/data/clusters_test_load_reference_data_from_dir/00.info.txt
similarity index 100%
rename from ariba/tests/data/clusters_test_load_reference_data_from_dir/info.txt
rename to ariba/tests/data/clusters_test_load_reference_data_from_dir/00.info.txt
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/01.filter.check_metadata.tsv b/ariba/tests/data/clusters_test_load_reference_data_from_dir/01.filter.check_metadata.tsv
new file mode 100644
index 0000000..a9598d9
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_reference_data_from_dir/01.filter.check_metadata.tsv
@@ -0,0 +1,3 @@
+noncoding1 0 0 . . .
+variants_only1 1 1 C2I . description of variants_only1 C2I
+presabs1 1 0 . . presabs1 description
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/02.cdhit.all.fa b/ariba/tests/data/clusters_test_load_reference_data_from_dir/02.cdhit.all.fa
new file mode 100644
index 0000000..ec08830
--- /dev/null
+++ b/ariba/tests/data/clusters_test_load_reference_data_from_dir/02.cdhit.all.fa
@@ -0,0 +1,6 @@
+>noncoding1
+ACGTA
+>presabs1
+atgatgatgagcccggcgatggaaggcggctag
+>variants_only1
+atggcgtgcgatgaataa
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/02.cdhit.clusters.pickle b/ariba/tests/data/clusters_test_load_reference_data_from_dir/02.cdhit.clusters.pickle
new file mode 100644
index 0000000..31780ae
Binary files /dev/null and b/ariba/tests/data/clusters_test_load_reference_data_from_dir/02.cdhit.clusters.pickle differ
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/cdhit.clusters.pickle b/ariba/tests/data/clusters_test_load_reference_data_from_dir/cdhit.clusters.pickle
deleted file mode 100644
index 2a2a480..0000000
Binary files a/ariba/tests/data/clusters_test_load_reference_data_from_dir/cdhit.clusters.pickle and /dev/null differ
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.non_coding.fa b/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.non_coding.fa
deleted file mode 100644
index 216a9da..0000000
--- a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.non_coding.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->noncoding1
-ACGTA
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.presence_absence.fa b/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.presence_absence.fa
deleted file mode 100644
index a083dc2..0000000
--- a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.presence_absence.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->presabs1
-atgatgatgagcccggcgatggaaggcggctag
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.tsv b/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.tsv
deleted file mode 100644
index 07c89d5..0000000
--- a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.tsv
+++ /dev/null
@@ -1,2 +0,0 @@
-variants_only1 p C2I . description of variants_only1 C2I
-presabs1 . . . presabs1 description
diff --git a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.variants_only.fa b/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.variants_only.fa
deleted file mode 100644
index 95fb726..0000000
--- a/ariba/tests/data/clusters_test_load_reference_data_from_dir/refcheck.01.check_variants.variants_only.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->variants_only1
-atggcgtgcgatgaataa
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.clusters.tsv b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.clusters.tsv
new file mode 100644
index 0000000..981a66d
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.clusters.tsv
@@ -0,0 +1,3 @@
+cluster1 ref1
+cluster2 ref2 ref3 ref7
+cluster3 ref4 ref5 ref6
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.cluster2representative b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.cluster2representative
new file mode 100644
index 0000000..439d4ca
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.cluster2representative
@@ -0,0 +1,2 @@
+cluster1 ref1
+cluster2 ref2
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.clusterCounts b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.clusterCounts
new file mode 100644
index 0000000..278d834
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.clusterCounts
@@ -0,0 +1,2 @@
+cluster1 1628 123728
+cluster2 1952 148352
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.insertHistogram b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.insertHistogram
new file mode 100644
index 0000000..dec7abd
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.insertHistogram
@@ -0,0 +1,31 @@
+191 1
+194 3
+196 4
+201 3
+202 3
+203 2
+204 4
+209 8
+210 3
+211 1
+212 19
+213 30
+214 43
+215 58
+216 83
+217 100
+218 116
+219 123
+220 151
+221 170
+222 128
+223 144
+224 108
+225 131
+226 103
+227 79
+228 79
+229 45
+230 22
+231 16
+232 1
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.properPairs b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.properPairs
new file mode 100644
index 0000000..24c937d
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.out.properPairs
@@ -0,0 +1 @@
+1471
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.reads_1.fq b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.reads_1.fq
new file mode 100644
index 0000000..79ec2f9
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.reads_1.fq
@@ -0,0 +1,5884 @@
+ at ref1:1:9604:9726/1
+GAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCGTATACCCCGTTGTATTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:2:8746:8871/1
+CAATCCCCATTTGTTATATTTTCTACTGTCAGCTCTGCCCACGCAACCTTACTACCAGAAATCTTCGATGACGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:3:481:605/1
+TAATGCTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:4:319:443/1
+GATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTCTTAAAATGTAAAAGTGCCTGAATCTAGCCCCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:5:4773:4896/1
+AAAGGGGGCCTCAGGTGAACGGTTTGTCTTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCATCCGCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:6:4716:4841/1
+TGGTCCCCAGAGCAAGCACATTGTTGGATTTTCATGCCAAGCCACGGAAGGTAAAGTAAAGGGGGCCTCAGGTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:7:4172:4296/1
+CATAAGGGACCAGCAGCGAATATGCCATCCTTGACCTTCACCATCAGCTGATTAAGTCTACGCACTGCCTCGATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:8:181:303/1
+CACGTACAGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGGACCATCATGAAGGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:9:5423:5546/1
+CACCTAGTTCCCCGGAATGGTGTCCGTATTATAGTGGCAACACCGAATCGGTTGCTAGTTGAGGTCTCCTGCCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:10:710:834/1
+TTAGGGGTTCTAAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:11:8787:8910/1
+CGCAACCTTACTACCAGAAATCTTCGATGACGCTAACTTGTGATCCAACTATCTTACTCCGCTTCCATGAAAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:12:3609:3732/1
+TCACCGCTATGCCCATTGGAACTCGGATCTACGAGGGGGATCCGCCAGGTGGTACGCAGTACCGACAATCGATTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:13:9248:9372/1
+ATGTCTTCCAGGAGCCATAGGTCCAAGCCACGGTTATCTCAGGAACATTACCATAAATATCTAGCGATCACTATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:14:3514:3639/1
+GCCGCATCTAAAATTCGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:15:4140:4264/1
+TACGGAACCTATCCGCACAGAAGCCTGTAAACCATAAGGGACCAGCAGCGAATATGCCATCCTTGACCTTCACCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:16:508:633/1
+TACGGATAGGACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTGAACGCAAAACGCATAACAGACTGACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:17:3586:3709/1
+TGTCCCAGGGACGGATACCGGTTTCACCGCTATGCCCATTGGAACTCGGATCTACGAGGGGGATCCGCCAGGTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:18:795:918/1
+GAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:19:5944:6068/1
+TCAAATGCGCGTGTCGTGGATGAGTGCTGACCGGACACCTTGACACAGCAATGGACGACTCCCAACTAAGGTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:20:6480:6603/1
+GACTATAGGTCTCTCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCAATCGACATGGAGACAGTGTATCGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:21:606:729/1
+AAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCATTATCTGACTCCTATGTTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:22:9381:9506/1
+AGTTCAGTCAGGAGTTGTAGTACCGGCCTGTCCTATTTGCGAATATCGTTGTTCAAGACCCACGCTACAATCGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:23:8935:9056/1
+CACCTCTTATAGCTCGGCGAGAAAAGCCGACGGTTAGCTCATACCGACTTTCGATTGATCATGTTTTCTCACTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:24:4551:4675/1
+AAAGCACACAAGCTTAGAGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCGCAGACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:25:288:411/1
+AGTTCGCACCACTTGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:26:4890:5016/1
+TTTGGTGTACGTATGGCTAAATTCGCTGGGTTCGGCGTCAACTCCCAGTGCTGTACCTGGAGGATCCGCGGGAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:27:6072:6195/1
+ATAGACTTAATAACGTGAGCCGCGGAGTGACCATGTTGTAAGCTCCTTGCTTGGCGGGCTTCAGAGTCACAACTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:28:4159:4284/1
+GAAGCCTGTAAACCATAAGGGACCAGCAGCGAATATGCCATCCTTGACCTTCACCATCAGCTGATTAAGTCTACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:29:2576:2698/1
+CATGACTTCGATAAGGTAGTCTGGTGGGACAAAATAACATAGGGAACGCCTTTAGGCCGCCGCCGGATAACAGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:30:7087:7207/1
+CTAGGAAGGCAGCGACTGATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:31:1813:1937/1
+GATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTCCTTTACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:32:5990:6113/1
+AGCAATGGACGACTCCCAACTAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:33:2033:2156/1
+GAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCTCTTCCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:34:8011:8135/1
+AGGAATGCCGCTGGTCAGGTTCCGAATGCTATAGTGGGAACCCAACTGGCATACTACTTGCGCAACTGGGCCTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:35:3068:3194/1
+CGGCCCCGCATCATGGTTCGCCGGTGTCAGCTTGCCGAGCGATATGCTGGCAAGTAATTTATACTAGAGTTGCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:36:8212:8336/1
+GCCCTGATCGCGCTTGGTTATTGTTGTGACAAAATTATCAAGCTTTAGTCTACCATTATATTGTTCGGATGCAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:37:5666:5790/1
+AGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGCCGAAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:38:3426:3551/1
+GCAATTGCAGTTAAAGACTTCACCCCAAACCCACCCCGAAAGTTATGCGGTATGTGCCCGAATAAGCGTAATGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:39:7751:7875/1
+ACCGATGATATCCACGGATCTTCGAATCGCGGCAATACTTGTAGGTTGATGTCCTCCCCAAAATACCCTGATTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:40:660:784/1
+ATTATCTGACTCCTATGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:41:4179:4303/1
+GACCAGCAGCGAATATGCCATCCTTGACCTTCACCATCAGCTGATTAAGTCTACGCACTGCCTCGATAGGTTTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:42:963:1087/1
+ACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:43:3332:3456/1
+CTCTCGTTCTTCCCGGGTGGTCCACAGATGGCGCTCTAATTACCCATCGGGGTTTATGAAGACACCATGCACAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:44:438:561/1
+CCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGCTGCTAACCGTTCACCGAACGTTACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:45:6153:6275/1
+TAACGTTGGGAGAAATAAAAGGAGGGGTAAGTCCTATCGTTCCGCACGGAGATTGTCTGAGGTGGACTCGTCCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:46:7539:7664/1
+GGGACGTGGAGTATAGGAACTTCGGGTACGGACGCCGACGTCTGGCGCCGGGAAGTGGGTGTAGACCTGTGTAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:47:3470:3594/1
+ATGCGGTATGTGCCCGAATAAGCGTAATGGGTCCGCCTTTCTACGCCGCATCTAAAATTCGCGGGCTATCGCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:48:4390:4512/1
+TCTTATCTAAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATTCTGGACAGCCTTCCATGGGGCACAAAGGTCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:49:8285:8410/1
+AGTGAGCAATAGATCCATAGTCGTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGATTGTGACAAGTACGTGACAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:50:1784:1907/1
+CACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:51:9495:9618/1
+TTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAGTGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:52:4544:4667/1
+ATGATTCAAAGCACACAAGCTTAGAGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:53:87:210/1
+TTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:54:9524:9647/1
+GTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAGTGATGTGCGGGGGGGCGTGTCCGGCGCCCCATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:55:599:723/1
+AGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCATTATCTGACTCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:56:5889:6014/1
+ACAACGAACGCCCGGGGCAGTAACACGGTCCAAAACGTACCCTTACAGGGCCATTTCAAATGCGCGTGTCGTGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:57:1595:1720/1
+CGCGAACTGACAAAAGGGAATTTGGCGGGTCCGGCAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:58:38:161/1
+GTATGACCATCCGGTGTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:59:7046:7169/1
+ACCGTCACTTCCTCCACCGGCATCGGGCACACGTGTTGTTCCTAGGAAGGCAGCGACTGATCCTTTAGTGAGAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:60:8947:9071/1
+CTCGGCGAGAAAAGCCGACGGTTAGCTCATACCGACTTTCGATTGATCATGTTTTCTCACTGTCCGTTAACGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:61:7622:7745/1
+TCGGTTAATTCCCTGGTAAAACACCAGTTCTCCAAGATGAAGGGTTAATGACCGTCAGGCGAGATACAGACAATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:62:7991:8115/1
+TAAGACCACACTGAGTAACCAGGAATGCCGCTGGTCAGGTTCCGAATGCTATAGTGGGAACCCAACTGGCATACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:63:8842:8967/1
+ACTCCGCTTCCATGAAAGTCACGGGGCAACCCTGTGTAAACTTGCGTAACCTGTCCCTGCGGTACAGTTTCCGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:64:4997:5120/1
+GCAGACTAGGCGTCCTGCTAATACTATCAAAGACGAGGACCACAATTGGTACTCGCGCTCCTGAAATAAGGGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:65:3970:4094/1
+GTCTCGGTCTATAGTCAACTTACTGGTTTCATACTACACCTACGTCATACCCACGTGCAGAATTACCGCGTGGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:66:5765:5890/1
+CCGTATCGTGTCTAGACTTATAGTGAAGTCATAGACCATTTAAGTGCCAGTGAAAGCAATCGCAGCCCGATACTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:67:5665:5788/1
+GAGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGCCGAAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:68:9466:9589/1
+AGGCGGGCCTCCCTTATAGCATTCGCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:69:3418:3542/1
+GCCGATTGGCAATTGCAGTTAAAGACTTCACCCCAAACCCACCCCGAAAGTTATGCGGTATGTGCCCGAATAAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:70:3884:4007/1
+TGTGATAGACCCTGTCTTAGGCTTGGTCCACGAGCAGCGTTAGAAAAAAAATATCGGGTGTAATCCCTTGTCTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:71:9409:9534/1
+TGTCCTATTTGCGAATATCGTTGTTCAAGACCCACGCTACAATCGGAAGCAGCTTTAAGGCGGGCCTCCCTTATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:72:9156:9278/1
+AGACCGGCAATGACCTCCTATGTCTACTGGGGAACAATAGCTTAGCACCCGTCAGATGCTACCATGCGCCGCGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:73:7751:7875.dup.2/1
+ACCGATGATATCCACGGATCTTCGAATCGCGGCAATACTTGTAGGTTGATGTCCTCCCCAAAATACCCTGATTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:74:5634:5757/1
+GGCGCAAGAAACAGCTGGCGGAGGACACGATGAGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGCCGAAAGAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:75:3714:3839/1
+AAATCTTATGCACGAGAACTCGGCTTTCCACGAGGTTATATGAGAGTCTATGACAAATCGTACGCTATTTGCATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:76:6633:6755/1
+TAGGCATACATCAGTCTCGGAGTAACACTAATAATGGAGCTAAGTTGGGAGACCCCGGCCCAGACAGGTTTTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:77:4772:4894/1
+TAAAGGGGGCCTCAGGTGAACGGTTTGTCTTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCATCCGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:78:82:206/1
+GGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:79:2247:2370/1
+CTCGGAGATATACCACTGAGAGCGGCACACTTTAGCATAGGCCTTTACCCACTGCGATACAGACACGACATCGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:80:7761:7886/1
+TCCACGGATCTTCGAATCGCGGCAATACTTGTAGGTTGATGTCCTCCCCAAAATACCCTGATTGTCAGCGCTCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:81:5126:5249/1
+TTGTACCTTTAAGACTACCGCGGGAATAGAAACGGATTCTATGGGCAGGAGGCCCTTCCAACGTCGCGATTCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:82:4937:5061/1
+GTGCTGTACCTGGAGGATCCGCGGGAACGTCTTTTTATAGTCCCGGATGTCACTCTTTAGGCAGACTAGGCGTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:83:7376:7499/1
+TACGGAGGCAACCAGTCATTGGTGGGAACTAGTACGTGAATGGCGCACCGGAAATTATATCCCTGGATTCGGTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:84:6572:6696/1
+GCGTAGGGGACCGTCATCCGGACACGTAACGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:85:658:780/1
+TCATTATCTGACTCCTATGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:86:9489:9612/1
+CGCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:87:8436:8559/1
+AGAGGCGCGACATCATGCCTGACGCAGGGAAATTCGGAGAGCTGTATAAGAGTTCGTAGGTACAGCCATATTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:88:3305:3428/1
+CTGAGCAGAAGTCGAATCTGCAACGGTCTCTCGTTCTTCCCGGGTGGTCCACAGATGGCGCTCTAATTACCCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:89:8117:8240/1
+TACGTATTTCCACTGCTAGGGTTTATAGCCGGTAGCCTCTGCGTTCTCTTGGCTAACATATTAGGACAACGTTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:90:9597:9720/1
+CATGTGCGAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCGTATACCCCGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:91:4195:4319/1
+GCCATCCTTGACCTTCACCATCAGCTGATTAAGTCTACGCACTGCCTCGATAGGTTTGATGACTGCGCGTTAACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:92:2972:3096/1
+TTGGACGTGAGGGCTACGTCTGATTCTCCGTACCAGTGGTGAGTAGACTTGGGGCGACGGCCCGTTCATTAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:93:6918:7043/1
+GTAAAGTCACGCGGCTGCCGTACATACCTTGAATTTATGGGGATAGGGACGGGAGTCCTTGCGGCTTGCGTACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:94:6307:6429/1
+AGCAACCTTTGCCAATTTACACGTTAACGCATGCCAATGGCAACATCAACGGCGGCCTTCAAAACCCCTGAGTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:95:795:920/1
+GAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:96:9712:9835/1
+GTGTGGATTCTCACCAACTCCACGACGATCCTCTGGTAATGCCCCACCCCTACATGATCTGACGGGTTTTTACGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:97:2028:2153/1
+TGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:98:4657:4781/1
+GGAATTACCAGTCCAGGAAATCAACACGAGTTTTCACCTGAGACGCGGCATGACGCCAGTGGTCCCCAGAGCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:99:5537:5659/1
+GCCAAGGGGTACGGTGTCGCCTATGCGGCTTGGTTACCTTTGCGCGTAATTGGGTCATCGTATGTGTATGTCTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:100:95:218/1
+GGGTATCCCCGCCAGGATATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:101:5105:5228/1
+GGGATTAGGCTCCTCGTCTATTTGTACCTTTAAGACTACCGCGGGAATAGAAACGGATTCTATGGGCAGGAGGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:102:4339:4462/1
+TGATAGTAATAATACCGACTACGAATCGAATGAATTGGACGAAGAGTGGTATCTTATCTAAATCGGTCTGGCCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:103:8179:8303/1
+AGGACAACGTTGTGGTGTCATCGTTAATCTGGAGCCCTGATCGCGCTTGGTTATTGTTGTGACAAAATTATCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:104:9253:9376/1
+TTCCAGGAGCCATAGGTCCAAGCCACGGTTATCTCAGGAACATTACCATAAATATCTAGCGATCACTATGACACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:105:6711:6836/1
+CAGGGACCGACCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGATATGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:106:6005:6128/1
+CCAACTAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAGAATCATGTATAGACTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:107:8835:8959/1
+CTATCTTACTCCGCTTCCATGAAAGTCACGGGGCAACCCTGTGTAAACTTGCGTAACCTGTCCCTGCGGTACAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:108:6195:6319/1
+CGCACGGAGATTGTCTGAGGTGGACTCGTCCGTTGACGAGGAGGTCCCCATCACGTTAGGCCATATGACATATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:109:2630:2754/1
+GGCCGCCGCCGGATAACAGCACCCTCTATTACTGATTTTCGTTAATTATGTTCAAATTGCTTGCGTGTGTCTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:110:6269:6392/1
+CGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGGGAGCAACCTTTGCCAATTTACACGTTAACGCATGCCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:111:2601:2725/1
+GGGACAAAATAACATAGGGAACGCCTTTAGGCCGCCGCCGGATAACAGCACCCTCTATTACTGATTTTCGTTAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:112:1271:1395/1
+TTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:113:1954:2078/1
+TCGCATTTTCTAGCGCGCGCGTGAAACACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:114:8719:8842/1
+CGTGTCAACGGATTCCTGGGTGACAGGCAATCCCCATTTGTTATATTTTCTACTGTCAGCTCTGCCCACGCAACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:115:3855:3980/1
+CGGTGTCTGACCCCGGGTGTAGAATACAGTGTGATAGACCCTGTCTTAGGCTTGGTCCACGAGCAGCGTTAGAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:116:2140:2264/1
+AACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCTTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:117:2221:2344/1
+GAACCCTCCAAGCTATGTTCGTCATGCTCGGAGATATACCACTGAGAGCGGCACACTTTAGCATAGGCCTTTACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:118:5428:5549/1
+AGTTCCCCGGAATGGTGTCCGTATTATAGTGGCAACACCGAATCGGTTGCTAGTTGAGGTCTCCTGCCGTGCAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:119:6779:6902/1
+ATATGAGTTGGGACATGCATAAGAATGACTCTGACGTAAATACCTCCGAGTGGACAGTAATACAAATCGCGCTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:120:7254:7378/1
+AGGGCGTATTGCGTCTTGTCTCGGTAGTTACTCCTACTGCTACGCGTCGAAGTCATTAGGGGTTTACGGTCTGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:121:3514:3638/1
+GCCGCATCTAAAATTCGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:122:219:342/1
+TCATTGATTTCCGGCGTCAAGGACCATCATGAAGGATCATTCCGGACCCGTTTTTCTGTACACCAAGGCAGTTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:123:4667:4789/1
+GTCCAGGAAATCAACACGAGTTTTCACCTGAGACGCGGCATGACGCCAGTGGTCCCCAGAGCAAGCACATTGTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:124:8880:9004/1
+AACTTGCGTAACCTGTCCCTGCGGTACAGTTTCCGAGTTCTTCCTCGTGAGCCGTCACCTCTTATAGCTCGGCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:125:8510:8635/1
+AGGTAATCTAGGTGAGAGTTTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:126:606:731/1
+AAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCATTATCTGACTCCTATGTTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:127:4239:4362/1
+CCTCGATAGGTTTGATGACTGCGCGTTAACTCTCATATATATACACTCCAACGTAAAGCTCGTGTTATCATTGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:128:1630:1752/1
+AATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:129:2630:2754.dup.2/1
+GGCCGCCGCCGGATAACAGCACCCTCTATTACTGATTTTCGTTAATTATGTTCAAATTGCTTGCGTGTGTCTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:130:9292:9415/1
+ACATTACCATAAATATCTAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:131:232:355/1
+GCGTCAAGGACCATCATGAAGGATCATTCCGGACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACTTGCCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:132:3633:3759/1
+GGATCTACGAGGGGGATCCGCCAGGTGGTACGCAGTACCGACAATCGATTGCCGGCAGAGGTGCACGTATTTGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:133:4028:4152/1
+AGAATTACCGCGTGGCTAAACCCCTCTCCACAGTCGCAACCCATCTACATAAAACTAATCACGATCTATGGATACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:134:4765:4889/1
+GGTAAAGTAAAGGGGGCCTCAGGTGAACGGTTTGTCTTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:135:2946:3071/1
+CTTACGTGCCGTAGCCAAGCATAGGATTGGACGTGAGGGCTACGTCTGATTCTCCGTACCAGTGGTGAGTAGACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:136:2385:2509/1
+ATGCTGAAAAGGGCTCGTGCACTAGGTCATATTGGTTCGATGCTAAGCCTGGGATACCGTCACCCCCACATCTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:137:8367:8490/1
+AAGCCCGTATAGCTGAGGGCCCAGGGACATATACTTCTGATTGTCGCGGATCGCGAAACGATCAGTGACAGAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:138:8298:8423/1
+TCCATAGTCGTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGATTGTGACAAGTACGTGACAGCATTTACAAGCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:139:5059:5183/1
+GAAATAAGGGTCCGCGCTGCTGGGGGTCTAAATCAGGCTTCTGGCCGGGATTAGGCTCCTCGTCTATTTGTACCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:140:3174:3296/1
+CCCGGCGTTCCGGTGTACTAGAGTACGCCACAATGAGTTGGGCATACAACAAACTAAATGAGCCTCTGATCACAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:141:5150:5275/1
+AATAGAAACGGATTCTATGGGCAGGAGGCCCTTCCAACGTCGCGATTCGGCTACGGGGCTCTACTCCGAATTCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:142:4375:4497/1
+GGACGAAGAGTGGTATCTTATCTAAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATTCTGGACAGCCTTCCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:143:4357:4480/1
+CTACGAATCGAATGAATTGGACGAAGAGTGGTATCTTATCTAAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:144:9490:9613/1
+GCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:145:5326:5451/1
+TATGAGGTAGTGTTTAGCGTGGAGACGCGCATAAAAATACTTGAACGTCCTCGTCCCCATCGGGCGGATGTGCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:146:53:176/1
+GTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:147:7481:7605/1
+TTACGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGGGACGTGGAGTATAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:148:6198:6322/1
+ACGGAGATTGTCTGAGGTGGACTCGTCCGTTGACGAGGAGGTCCCCATCACGTTAGGCCATATGACATATTCGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:149:4966:5089/1
+TCTTTTTATAGTCCCGGATGTCACTCTTTAGGCAGACTAGGCGTCCTGCTAATACTATCAAAGACGAGGACCACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:150:2395:2520/1
+GGGCTCGTGCACTAGGTCATATTGGTTCGATGCTAAGCCTGGGATACCGTCACCCCCACATCTCGACGCTTTGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:151:9622:9745/1
+CAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCGTATACCCCGTTGTATTGAATATGGGAACCTTGGCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:152:7099:7224/1
+CGACTGATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGCGATAACCATGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:153:5202:5325/1
+ACGGGGCTCTACTCCGAATTCCGTAGACGGGGATAGCTGTCACCACAGTCGTTAGCCGATTCAGCCTCAGCGCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:154:6720:6843/1
+ACCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGATATGAGTTGGGACATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:155:7095:7219/1
+GCAGCGACTGATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGCGATAACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:156:8137:8260/1
+GTTTATAGCCGGTAGCCTCTGCGTTCTCTTGGCTAACATATTAGGACAACGTTGTGGTGTCATCGTTAATCTGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:157:7140:7264/1
+TACATACGACGCAAGTGGAGGGCGATAACCATGAAGTCGGGTAAACATTCTGGGGCAAGCTACTACTACGGCTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:158:9254:9376/1
+TCCAGGAGCCATAGGTCCAAGCCACGGTTATCTCAGGAACATTACCATAAATATCTAGCGATCACTATGACACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:159:985:1110/1
+ATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:160:7029:7152/1
+TTCTTGCATCCGGCGCTACCGTCACTTCCTCCACCGGCATCGGGCACACGTGTTGTTCCTAGGAAGGCAGCGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:161:3901:4023/1
+TAGGCTTGGTCCACGAGCAGCGTTAGAAAAAAAATATCGGGTGTAATCCCTTGTCTCGTATAGGCTAACGTCTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:162:3906:4028/1
+TTGGTCCACGAGCAGCGTTAGAAAAAAAATATCGGGTGTAATCCCTTGTCTCGTATAGGCTAACGTCTCGGTCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:163:3549:3674/1
+CGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTCCCAGGGACGGATACCGGTTTCACCGCTATGCCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:164:1351:1476/1
+TCAACTAACCAAGAGTACAGGTGGTTGTCCATCATGCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:165:2438:2560/1
+ATACCGTCACCCCCACATCTCGACGCTTTGATAGTTGTTCACACACCCCGCGACTCGTTCCCGAGAGAGCTTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:166:9296:9420/1
+TACCATAAATATCTAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:167:4299:4424/1
+CGTGTTATCATTGATCCGTCTCGCCATAGAAGTTGACGAGTGATAGTAATAATACCGACTACGAATCGAATGAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:168:7756:7880/1
+TGATATCCACGGATCTTCGAATCGCGGCAATACTTGTAGGTTGATGTCCTCCCCAAAATACCCTGATTGTCAGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:169:9051:9175/1
+ATACAGTGGCTACGGATATTAAATATACCGACAGGCCGACTGTAAAGGGGAGCGAAGGACGTCTTGGTCCTCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:170:4506:4629/1
+AGGATCGTACCTCATCAAACTCGGCTCATTAGCGGGCTATGATTCAAAGCACACAAGCTTAGAGGCCGTGCATACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:171:5050:5175/1
+CGCGCTCCTGAAATAAGGGTCCGCGCTGCTGGGGGTCTAAATCAGGCTTCTGGCCGGGATTAGGCTCCTCGTCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:172:5133:5258/1
+TTTAAGACTACCGCGGGAATAGAAACGGATTCTATGGGCAGGAGGCCCTTCCAACGTCGCGATTCGGCTACGGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:173:5467:5591/1
+GAATCGGTTGCTAGTTGAGGTCTCCTGCCGTGCAATGCACCTTAAAGTGCATCACGACTTAAGTTCGTTAGCCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:174:7253:7376/1
+AAGGGCGTATTGCGTCTTGTCTCGGTAGTTACTCCTACTGCTACGCGTCGAAGTCATTAGGGGTTTACGGTCTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:175:6232:6357/1
+GAGGAGGTCCCCATCACGTTAGGCCATATGACATATTCGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:176:2169:2292/1
+GCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCTTGATACATTGAACCCTCCAAGCTATGTTCGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:177:6515:6637/1
+TATCGATGTTGTCCAATCGACATGGAGACAGTGTATCGCCAACGATCGTCGGTAAGTGCGTAGGGGACCGTCATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:178:5584:5705/1
+AATTGGGTCATCGTATGTGTATGTCTACTCTGACACTGCACTGTTCTTGAGGCGCAAGAAACAGCTGGCGGAGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:179:1450:1573/1
+CACCAGTATATACTCCGGAAGTCATTAACCACGGGTCGCTCCCCGAGACTAGCGACCACCGTCCCGTTCTCGAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:180:4781:4904/1
+CCTCAGGTGAACGGTTTGTCTTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCATCCGCTGGAGCTAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:181:8272:8396/1
+TTGTTCGGATGCAAGTGAGCAATAGATCCATAGTCGTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGATTGTGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:182:6245:6368/1
+TCACGTTAGGCCATATGACATATTCGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGGGAGCAACCTTTGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:183:7966:8089/1
+CGATGGCACATCAGCAATGAGCAGATAAGACCACACTGAGTAACCAGGAATGCCGCTGGTCAGGTTCCGAATGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:184:6744:6868/1
+ACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGATATGAGTTGGGACATGCATAAGAATGACTCTGACGTAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:185:3567:3688/1
+TCCGACTCTGCTGTCTTAATGTCCCAGGGACGGATACCGGTTTCACCGCTATGCCCATTGGAACTCGGATCTACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:186:6114:6238/1
+CTCCTTGCTTGGCGGGCTTCAGAGTCACAACTCAACAACTAACGTTGGGAGAAATAAAAGGAGGGGTAAGTCCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:187:3423:3544/1
+TTGGCAATTGCAGTTAAAGACTTCACCCCAAACCCACCCCGAAAGTTATGCGGTATGTGCCCGAATAAGCGTAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:188:9368:9492/1
+GCATAAGGAACAAAGTTCAGTCAGGAGTTGTAGTACCGGCCTGTCCTATTTGCGAATATCGTTGTTCAAGACCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:189:3510:3632/1
+CTACGCCGCATCTAAAATTCGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:190:675:800/1
+TGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACATATCAAGTCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:191:6881:7005/1
+AAAGTATCACCTTAGCCGCTAATCGTGATAGAAATCTGTAAAGTCACGCGGCTGCCGTACATACCTTGAATTTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:192:8257:8382/1
+TAGTCTACCATTATATTGTTCGGATGCAAGTGAGCAATAGATCCATAGTCGTGTTTAAGCCCACGCCTGAGTCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:193:462:586/1
+GACGACTTCCAATCAGAATTAATGCTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:194:65:187/1
+TGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTGCCCAATCACGTTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:195:7758:7881/1
+ATATCCACGGATCTTCGAATCGCGGCAATACTTGTAGGTTGATGTCCTCCCCAAAATACCCTGATTGTCAGCGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:196:6821:6946/1
+CCTCCGAGTGGACAGTAATACAAATCGCGCTAAACCTCTAACAGGGTCGGCTTGTGGTCCAAAGTATCACCTTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:197:1629:1756/1
+CAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:198:9074:9198/1
+TATACCGACAGGCCGACTGTAAAGGGGAGCGAAGGACGTCTTGGTCCTCGGCTATACAACCTATGTACAGGGTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:199:7427:7549/1
+AAATTATATCCCTGGATTCGGTTTTATGTCGTACGCCCGTTCTCAGATATGTATTTACGCAGCGTATCTGGCTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:200:5944:6067/1
+TCAAATGCGCGTGTCGTGGATGAGTGCTGACCGGACACCTTGACACAGCAATGGACGACTCCCAACTAAGGTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:201:6422:6546/1
+AGTTACTATGGAAATCTGCGGTTAGTCAGTCTAACTTGCAGAAAGCTCGTATAGCAAGGACTATAGGTCTCTCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:202:4148:4271/1
+CTATCCGCACAGAAGCCTGTAAACCATAAGGGACCAGCAGCGAATATGCCATCCTTGACCTTCACCATCAGCTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:203:9402:9525/1
+ACCGGCCTGTCCTATTTGCGAATATCGTTGTTCAAGACCCACGCTACAATCGGAAGCAGCTTTAAGGCGGGCCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:204:9444:9569/1
+GCTACAATCGGAAGCAGCTTTAAGGCGGGCCTCCCTTATAGCATTCGCGGCTTCCGTTACGATGGATAAAACATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:205:1365:1488/1
+GTACAGGTGGTTGTCCATCATGCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTAGACAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:206:9344:9469/1
+CAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTTCAGTCAGGAGTTGTAGTACCGGCCTGTCCTATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:207:2310:2433/1
+CACGACATCGGGCGGAAGTACCGTTGTATTGTCTCGCCCTGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:208:422:545/1
+AGCTAAGACTGAGGGGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGCTGCTAACCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:209:7891:8014/1
+CGGACAATAGGCACTGTCCTACGTCTGACTTTGGGAGACAGTGGGGAGGAGGTTTGGAGCCGGTTGGAGAGAGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:210:7464:7588/1
+CGTTCTCAGATATGTATTTACGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:211:2623:2747/1
+GCCTTTAGGCCGCCGCCGGATAACAGCACCCTCTATTACTGATTTTCGTTAATTATGTTCAAATTGCTTGCGTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:212:3612:3736/1
+CCGCTATGCCCATTGGAACTCGGATCTACGAGGGGGATCCGCCAGGTGGTACGCAGTACCGACAATCGATTGCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:213:8529:8652/1
+TTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:214:1886:2010/1
+CTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:215:87:209/1
+TTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:216:6855:6979/1
+CCTCTAACAGGGTCGGCTTGTGGTCCAAAGTATCACCTTAGCCGCTAATCGTGATAGAAATCTGTAAAGTCACGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:217:1981:2104/1
+ACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:218:3629:3754/1
+ACTCGGATCTACGAGGGGGATCCGCCAGGTGGTACGCAGTACCGACAATCGATTGCCGGCAGAGGTGCACGTATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:219:7811:7935/1
+AAATACCCTGATTGTCAGCGCTCTGGGGACCTCGTACCATATAAAAGTCTCATTGGATCTAGTTAGTGAGTCGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:220:2349:2474/1
+TGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGGATGCTGAAAAGGGCTCGTGCACTAGGTCATATTGGTTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:221:9605:9727/1
+AGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCGTATACCCCGTTGTATTGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:222:6788:6911/1
+GGGACATGCATAAGAATGACTCTGACGTAAATACCTCCGAGTGGACAGTAATACAAATCGCGCTAAACCTCTAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:223:7834:7957/1
+TGGGGACCTCGTACCATATAAAAGTCTCATTGGATCTAGTTAGTGAGTCGCTCGTTGCGGACAATAGGCACTGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:224:4257:4381/1
+CTGCGCGTTAACTCTCATATATATACACTCCAACGTAAAGCTCGTGTTATCATTGATCCGTCTCGCCATAGAAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:225:2886:3010/1
+ACGTTGCTTTGAGGGATACACATCCAGGCGTTGCGATGTCTTGCGGGCCGAGGCGAGAATCTTACGTGCCGTAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:226:9306:9428/1
+ATCTAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:227:367:491/1
+TGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTAAGACTGAGGGGCCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:228:3997:4121/1
+TTCATACTACACCTACGTCATACCCACGTGCAGAATTACCGCGTGGCTAAACCCCTCTCCACAGTCGCAACCCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:229:1477:1601/1
+ACCACGGGTCGCTCCCCGAGACTAGCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:230:6711:6836.dup.2/1
+CAGGGACCGACCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGATATGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:231:5325:5449/1
+TTATGAGGTAGTGTTTAGCGTGGAGACGCGCATAAAAATACTTGAACGTCCTCGTCCCCATCGGGCGGATGTGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:232:720:843/1
+TAAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:233:4963:5087/1
+ACGTCTTTTTATAGTCCCGGATGTCACTCTTTAGGCAGACTAGGCGTCCTGCTAATACTATCAAAGACGAGGACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:234:7317:7440/1
+TTACGGTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCTCGGTCCGGTACCGATACGGAGGCAACCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:235:2930:3053/1
+GGGCCGAGGCGAGAATCTTACGTGCCGTAGCCAAGCATAGGATTGGACGTGAGGGCTACGTCTGATTCTCCGTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:236:5600:5723/1
+GTGTATGTCTACTCTGACACTGCACTGTTCTTGAGGCGCAAGAAACAGCTGGCGGAGGACACGATGAGGGGCCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:237:8348:8472/1
+AGTACGTGACAGCATTTACAAGCCCGTATAGCTGAGGGCCCAGGGACATATACTTCTGATTGTCGCGGATCGCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:238:7477:7603/1
+GTATTTACGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGGGACGTGGAGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:239:4407:4530/1
+TGGCCAAGGCAGGCTCGCCACAGATTCTGGACAGCCTTCCATGGGGCACAAAGGTCTTCTATCCGCTACAGCATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:240:3840:3963/1
+GTTAGGATAAGACTACGGTGTCTGACCCCGGGTGTAGAATACAGTGTGATAGACCCTGTCTTAGGCTTGGTCCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:241:2231:2354/1
+AGCTATGTTCGTCATGCTCGGAGATATACCACTGAGAGCGGCACACTTTAGCATAGGCCTTTACCCACTGCGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:242:2529:2652/1
+AACCGCAAACAGCCACAGGGAACTTCCTTTGCCCTCGGTGTACTGACCATGACTTCGATAAGGTAGTCTGGTGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:243:7427:7550/1
+AAATTATATCCCTGGATTCGGTTTTATGTCGTACGCCCGTTCTCAGATATGTATTTACGCAGCGTATCTGGCTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:244:2550:2673/1
+ACTTCCTTTGCCCTCGGTGTACTGACCATGACTTCGATAAGGTAGTCTGGTGGGACAAAATAACATAGGGAACGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:245:7122:7244/1
+GAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGCGATAACCATGAAGTCGGGTAAACATTCTGGGGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:246:159:283/1
+CAACGTGGAAGGAAATGTGCTTCACGTACAGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:247:271:395/1
+TTTCTGTACACCAAGGCAGTTCGCACCACTTGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGATATACGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:248:7269:7392/1
+TTGTCTCGGTAGTTACTCCTACTGCTACGCGTCGAAGTCATTAGGGGTTTACGGTCTGAGCTGGCCATGTCACCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:249:1818:1943/1
+CGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTCCTTTACTACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:250:924:1048/1
+TGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:251:6019:6142/1
+AGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAGAATCATGTATAGACTTAATAACGTGAGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:252:4544:4666/1
+ATGATTCAAAGCACACAAGCTTAGAGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:253:3254:3376/1
+TTGATGCTATAGGTGGTGTCCTTGCCAATCTGGACTCTAATCACGTTTGTTCTGAGCAGAAGTCGAATCTGCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:254:8205:8329/1
+ATCTGGAGCCCTGATCGCGCTTGGTTATTGTTGTGACAAAATTATCAAGCTTTAGTCTACCATTATATTGTTCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:255:6196:6319/1
+GCACGGAGATTGTCTGAGGTGGACTCGTCCGTTGACGAGGAGGTCCCCATCACGTTAGGCCATATGACATATTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:256:8427:8550/1
+ATCAGTGACAGAGGCGCGACATCATGCCTGACGCAGGGAAATTCGGAGAGCTGTATAAGAGTTCGTAGGTACAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:257:6493:6617/1
+TCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCAATCGACATGGAGACAGTGTATCGCCAACGATCGTCGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:258:7191:7316/1
+GGGGCAAGCTACTACTACGGCTGGCCGTGGGCCTATAACGCCACATAGACATAACACATTCGAAGGGCGTATTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:259:1264:1389/1
+CGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:260:1108:1233/1
+CATCGCACAGCGCAACCCCACACACTGTACATCCAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:261:7529:7653/1
+TGAACCGATAGGGACGTGGAGTATAGGAACTTCGGGTACGGACGCCGACGTCTGGCGCCGGGAAGTGGGTGTAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:262:1889:2013/1
+CCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:263:8914:9036/1
+GAGTTCTTCCTCGTGAGCCGTCACCTCTTATAGCTCGGCGAGAAAAGCCGACGGTTAGCTCATACCGACTTTCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:264:8389:8512/1
+AGGGACATATACTTCTGATTGTCGCGGATCGCGAAACGATCAGTGACAGAGGCGCGACATCATGCCTGACGCAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:265:2617:2741/1
+GGGAACGCCTTTAGGCCGCCGCCGGATAACAGCACCCTCTATTACTGATTTTCGTTAATTATGTTCAAATTGCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:266:9489:9613/1
+CGCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:267:3947:4072/1
+TCCCTTGTCTCGTATAGGCTAACGTCTCGGTCTATAGTCAACTTACTGGTTTCATACTACACCTACGTCATACCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:268:2309:2432/1
+ACACGACATCGGGCGGAAGTACCGTTGTATTGTCTCGCCCTGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:269:1723:1845/1
+GAAGTATTCTCACCAGCCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:270:7322:7445/1
+GTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCTCGGTCCGGTACCGATACGGAGGCAACCAGTCATTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:271:1649:1772/1
+TCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:272:7215:7337/1
+CCGTGGGCCTATAACGCCACATAGACATAACACATTCGAAGGGCGTATTGCGTCTTGTCTCGGTAGTTACTCCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:273:2685:2809/1
+ATTGCTTGCGTGTGTCTCATGTTCGAACGGCCTCAGCACAAGACTGGAGCGTTAAAGGTGGTAAGTATAGACAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:274:6667:6792/1
+TGGAGCTAAGTTGGGAGACCCCGGCCCAGACAGGTTTTCACCAGCAGGGACCGACCCGGCACACTGGCTATCCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:275:6586:6708/1
+CATCCGGACACGTAACGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGTCTCGGAGTAACACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:276:5887:6012/1
+TAACAACGAACGCCCGGGGCAGTAACACGGTCCAAAACGTACCCTTACAGGGCCATTTCAAATGCGCGTGTCGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:277:2619:2745/1
+GAACGCCTTTAGGCCGCCGCCGGATAACAGCACCCTCTATTACTGATTTTCGTTAATTATGTTCAAATTGCTTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:278:7078:7203/1
+GTGTTGTTCCTAGGAAGGCAGCGACTGATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:279:1230:1352/1
+TCTCCGGGTTTCATGAACCTCGGTTGGGCAGTGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:280:5504:5626/1
+CACCTTAAAGTGCATCACGACTTAAGTTCGTTAGCCAAGGGGTACGGTGTCGCCTATGCGGCTTGGTTACCTTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:281:9018:9141/1
+GGAGATTAGATCCGTATTATTAAAGCATTCGTTATACAGTGGCTACGGATATTAAATATACCGACAGGCCGACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:282:9531:9653/1
+TTCGAAAGACATCCCGACCGAAAGCAAACACGAGTGATGTGCGGGGGGGCGTGTCCGGCGCCCCATCATGTGCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:283:7634:7759/1
+CTGGTAAAACACCAGTTCTCCAAGATGAAGGGTTAATGACCGTCAGGCGAGATACAGACAATAATGCTAATATTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:284:1994:2119/1
+GATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:285:5259:5383/1
+GATTCAGCCTCAGCGCCTAATACCGGCAATCCTGAACGGCCCCCACTTTACGCGGGCATGGTCCCATTATGAGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:286:2754:2877/1
+GACAAGCCATGCGCTGGATTTACTCGTAAAATGGCGTGATTCTGATAACTATACTTCGCCGACACGGGGTACCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:287:3166:3291/1
+TTGATACGCCCGGCGTTCCGGTGTACTAGAGTACGCCACAATGAGTTGGGCATACAACAAACTAAATGAGCCTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:288:833:958/1
+TGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGGATAATATCCTGGGTGATCTGATCCAAATCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:289:489:612/1
+CTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTGAACGCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:290:870:993/1
+ATTAAGGATAATATCCTGGGTGATCTGATCCAAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:291:9783:9905/1
+ACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTTAACAGGGACCACGCCGCAAAATGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:292:4859:4981/1
+TCTACATGGCCGCAACGCCGTAACGGAGTCCTTTGGTGTACGTATGGCTAAATTCGCTGGGTTCGGCGTCAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:293:1013:1138/1
+TTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCGAGCCTATGAGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:294:6283:6409/1
+GGTATGCAAGTCCCACAGTAGGGGAGCAACCTTTGCCAATTTACACGTTAACGCATGCCAATGGCAACATCAACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:295:9644:9766/1
+GAGCGTCATCGGTCGCGTATACCCCGTTGTATTGAATATGGGAACCTTGGCATAGCAGATGAGAGTTCGTGTGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:296:351:474/1
+GCGAACAGTCTTAAAATGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:297:5168:5292/1
+GGGCAGGAGGCCCTTCCAACGTCGCGATTCGGCTACGGGGCTCTACTCCGAATTCCGTAGACGGGGATAGCTGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:298:7011:7135/1
+TTGCGGGTAGTGTGGACATTCTTGCATCCGGCGCTACCGTCACTTCCTCCACCGGCATCGGGCACACGTGTTGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:299:3005:3127/1
+CAGTGGTGAGTAGACTTGGGGCGACGGCCCGTTCATTAACTCCACAAAAGTTTGTCCCCCGTCCGGCCCCGCATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:300:9606:9729/1
+GAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCGTATACCCCGTTGTATTGAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:301:2768:2892/1
+TGGATTTACTCGTAAAATGGCGTGATTCTGATAACTATACTTCGCCGACACGGGGTACCTACGTGGGATCACGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:302:2356:2479/1
+AGCTCTATTAGGCGCACTTGAATTGGTGGATGCTGAAAAGGGCTCGTGCACTAGGTCATATTGGTTCGATGCTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:303:1268:1390/1
+AAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:304:7843:7967/1
+CGTACCATATAAAAGTCTCATTGGATCTAGTTAGTGAGTCGCTCGTTGCGGACAATAGGCACTGTCCTACGTCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:305:6230:6354/1
+ACGAGGAGGTCCCCATCACGTTAGGCCATATGACATATTCGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:306:3849:3972/1
+AGACTACGGTGTCTGACCCCGGGTGTAGAATACAGTGTGATAGACCCTGTCTTAGGCTTGGTCCACGAGCAGCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:307:2105:2227/1
+CGTGCCTTACTACCGCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:308:4408:4533/1
+GGCCAAGGCAGGCTCGCCACAGATTCTGGACAGCCTTCCATGGGGCACAAAGGTCTTCTATCCGCTACAGCATTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:309:9315:9441/1
+TCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTTCAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:310:666:791/1
+TGACTCCTATGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:311:4873:4997/1
+ACGCCGTAACGGAGTCCTTTGGTGTACGTATGGCTAAATTCGCTGGGTTCGGCGTCAACTCCCAGTGCTGTACCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:312:7191:7314/1
+GGGGCAAGCTACTACTACGGCTGGCCGTGGGCCTATAACGCCACATAGACATAACACATTCGAAGGGCGTATTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:313:7484:7609/1
+CGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGGGACGTGGAGTATAGGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:314:2577:2701/1
+ATGACTTCGATAAGGTAGTCTGGTGGGACAAAATAACATAGGGAACGCCTTTAGGCCGCCGCCGGATAACAGCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:315:862:985/1
+GCAGAAACATTAAGGATAATATCCTGGGTGATCTGATCCAAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:316:5318:5443/1
+GGTCCCATTATGAGGTAGTGTTTAGCGTGGAGACGCGCATAAAAATACTTGAACGTCCTCGTCCCCATCGGGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:317:3938:4062/1
+CGGGTGTAATCCCTTGTCTCGTATAGGCTAACGTCTCGGTCTATAGTCAACTTACTGGTTTCATACTACACCTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:318:7294:7418/1
+TACGCGTCGAAGTCATTAGGGGTTTACGGTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCTCGGTCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:319:6188:6312/1
+ATCGTTCCGCACGGAGATTGTCTGAGGTGGACTCGTCCGTTGACGAGGAGGTCCCCATCACGTTAGGCCATATGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:320:9257:9380/1
+AGGAGCCATAGGTCCAAGCCACGGTTATCTCAGGAACATTACCATAAATATCTAGCGATCACTATGACACGGGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:321:9464:9588/1
+TAAGGCGGGCCTCCCTTATAGCATTCGCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:322:5634:5758/1
+GGCGCAAGAAACAGCTGGCGGAGGACACGATGAGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGCCGAAAGAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:323:9329:9451/1
+GTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTTCAGTCAGGAGTTGTAGTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:324:667:791/1
+GACTCCTATGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACATATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:325:5406:5528/1
+AAAGTTAATAGTGCAGTCACCTAGTTCCCCGGAATGGTGTCCGTATTATAGTGGCAACACCGAATCGGTTGCTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:326:1872:1995/1
+ATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:327:4337:4460/1
+AGTGATAGTAATAATACCGACTACGAATCGAATGAATTGGACGAAGAGTGGTATCTTATCTAAATCGGTCTGGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:328:6859:6982/1
+TAACAGGGTCGGCTTGTGGTCCAAAGTATCACCTTAGCCGCTAATCGTGATAGAAATCTGTAAAGTCACGCGGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:329:9573:9698/1
+GGGGGGGCGTGTCCGGCGCCCCATCATGTGCGAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:330:716:840/1
+GTTCTAAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:331:5280:5405/1
+ACCGGCAATCCTGAACGGCCCCCACTTTACGCGGGCATGGTCCCATTATGAGGTAGTGTTTAGCGTGGAGACGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:332:9107:9231/1
+GGACGTCTTGGTCCTCGGCTATACAACCTATGTACAGGGTCACTTTATGAGACCGGCAATGACCTCCTATGTCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:333:954:1079/1
+ATGCGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGCCGGTTCTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:334:5527:5650/1
+AAGTTCGTTAGCCAAGGGGTACGGTGTCGCCTATGCGGCTTGGTTACCTTTGCGCGTAATTGGGTCATCGTATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:335:149:273/1
+TGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACAGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:336:6248:6372/1
+CGTTAGGCCATATGACATATTCGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGGGAGCAACCTTTGCCAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:337:9563:9686/1
+AGTGATGTGCGGGGGGGCGTGTCCGGCGCCCCATCATGTGCGAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:338:419:543/1
+CTCAGCTAAGACTGAGGGGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGCTGCTAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:339:2281:2405/1
+GCATAGGCCTTTACCCACTGCGATACAGACACGACATCGGGCGGAAGTACCGTTGTATTGTCTCGCCCTGGCAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:340:5980:6102/1
+ACCTTGACACAGCAATGGACGACTCCCAACTAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:341:4416:4540/1
+CAGGCTCGCCACAGATTCTGGACAGCCTTCCATGGGGCACAAAGGTCTTCTATCCGCTACAGCATTTCGCGATCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:342:8091:8215/1
+TTAATTGCGCCACTGGCAACCTCCAGTACGTATTTCCACTGCTAGGGTTTATAGCCGGTAGCCTCTGCGTTCTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:343:1765:1888/1
+TTACGTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:344:7038:7162/1
+CCGGCGCTACCGTCACTTCCTCCACCGGCATCGGGCACACGTGTTGTTCCTAGGAAGGCAGCGACTGATCCTTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:345:1055:1179/1
+AGGCACGTGTCATCGTCCGAGCCTATGAGGAACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:346:5922:6047/1
+AACGTACCCTTACAGGGCCATTTCAAATGCGCGTGTCGTGGATGAGTGCTGACCGGACACCTTGACACAGCAATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:347:6454:6576/1
+AACTTGCAGAAAGCTCGTATAGCAAGGACTATAGGTCTCTCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:348:5737:5861/1
+ATCTTTCTGACTGACCTGTATTACGAGGCCGTATCGTGTCTAGACTTATAGTGAAGTCATAGACCATTTAAGTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:349:532:657/1
+TCTGTTATGAATGCCCGGCCAGCTGAACGCAAAACGCATAACAGACTGACGAATTAGCGCCGTGGGGAGAAAAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:350:6968:7091/1
+GGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAGTGTGGACATTCTTGCATCCGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:351:1027:1151/1
+TTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCGAGCCTATGAGGAACAGTCCATGACATTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:352:3228:3352/1
+TAAATGAGCCTCTGATCACAGGACAGTTGATGCTATAGGTGGTGTCCTTGCCAATCTGGACTCTAATCACGTTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:353:386:509/1
+AGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTAAGACTGAGGGGCCATTCAGTCTGACACTGTCTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:354:7104:7228/1
+GATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGCGATAACCATGAAGTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:355:2795:2919/1
+CTGATAACTATACTTCGCCGACACGGGGTACCTACGTGGGATCACGGCCAGAGTCGCACAAGGGTAGTTAAATCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:356:8422:8543/1
+AAACGATCAGTGACAGAGGCGCGACATCATGCCTGACGCAGGGAAATTCGGAGAGCTGTATAAGAGTTCGTAGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:357:337:462/1
+ATATACGAGTGCACGCGAACAGTCTTAAAATGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:358:5623:5747/1
+ACTGTTCTTGAGGCGCAAGAAACAGCTGGCGGAGGACACGATGAGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:359:6484:6608/1
+ATAGGTCTCTCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCAATCGACATGGAGACAGTGTATCGCCAACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:360:3529:3651/1
+CGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTCCCAGGGACGGATACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:361:1302:1425/1
+CAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:362:8306:8431/1
+CGTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGATTGTGACAAGTACGTGACAGCATTTACAAGCCCGTATAGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:363:1497:1621/1
+ACTAGCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTCTAGATCTCAAGACGTTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:364:2232:2352/1
+GCTATGTTCGTCATGCTCGGAGATATACCACTGAGAGCGGCACACTTTAGCATAGGCCTTTACCCACTGCGATACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:365:6328:6452/1
+CGTTAACGCATGCCAATGGCAACATCAACGGCGGCCTTCAAAACCCCTGAGTGGTTAGCCGGAGAAACCAAGCACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:366:1739:1862/1
+CCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:367:5626:5750/1
+GTTCTTGAGGCGCAAGAAACAGCTGGCGGAGGACACGATGAGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:368:6945:7070/1
+CTTGAATTTATGGGGATAGGGACGGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:369:5871:5996/1
+CCCCAGTTTAGGGGGCTAACAACGAACGCCCGGGGCAGTAACACGGTCCAAAACGTACCCTTACAGGGCCATTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:370:9748:9873/1
+TAATGCCCCACCCCTACATGATCTGACGGGTTTTTACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:371:3527:3649/1
+TTCGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTCCCAGGGACGGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:372:9058:9182/1
+GGCTACGGATATTAAATATACCGACAGGCCGACTGTAAAGGGGAGCGAAGGACGTCTTGGTCCTCGGCTATACAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:373:4107:4230/1
+TTGCCCTGCAATCACTAAAAGCGTTTCACCTCTTACGGAACCTATCCGCACAGAAGCCTGTAAACCATAAGGGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:374:5592:5716/1
+CATCGTATGTGTATGTCTACTCTGACACTGCACTGTTCTTGAGGCGCAAGAAACAGCTGGCGGAGGACACGATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:375:359:482/1
+TCTTAAAATGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTAAGACTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:376:5685:5810/1
+GGTAGAGGCCCCGCCGAAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCTTTCTGACTGACCTGTATTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:377:2027:2152/1
+CTGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:378:8492:8615/1
+TAGGTACAGCCATATTAAAGGTAATCTAGGTGAGAGTTTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:379:8176:8301/1
+ATTAGGACAACGTTGTGGTGTCATCGTTAATCTGGAGCCCTGATCGCGCTTGGTTATTGTTGTGACAAAATTATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:380:7354:7477/1
+GGTAATCTCGGTCCGGTACCGATACGGAGGCAACCAGTCATTGGTGGGAACTAGTACGTGAATGGCGCACCGGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:381:518:643/1
+ACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTGAACGCAAAACGCATAACAGACTGACGAATTAGCGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:382:3251:3373/1
+CAGTTGATGCTATAGGTGGTGTCCTTGCCAATCTGGACTCTAATCACGTTTGTTCTGAGCAGAAGTCGAATCTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:383:4548:4672/1
+TTCAAAGCACACAAGCTTAGAGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCGCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:384:5451:5574/1
+TTATAGTGGCAACACCGAATCGGTTGCTAGTTGAGGTCTCCTGCCGTGCAATGCACCTTAAAGTGCATCACGACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:385:6435:6558/1
+ATCTGCGGTTAGTCAGTCTAACTTGCAGAAAGCTCGTATAGCAAGGACTATAGGTCTCTCGGGCCAATATTCCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:386:1485:1608/1
+TCGCTCCCCGAGACTAGCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTCTAGATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:387:7428:7552/1
+AATTATATCCCTGGATTCGGTTTTATGTCGTACGCCCGTTCTCAGATATGTATTTACGCAGCGTATCTGGCTCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:388:3903:4026/1
+GGCTTGGTCCACGAGCAGCGTTAGAAAAAAAATATCGGGTGTAATCCCTTGTCTCGTATAGGCTAACGTCTCGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:389:5988:6111/1
+ACAGCAATGGACGACTCCCAACTAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:390:1840:1962/1
+ACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:391:1326:1450/1
+CTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCCATCATGCCCGATCGGGTTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:392:4572:4696/1
+CGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCGCAGACTTAATCGGCTGCCTAAATTTTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:393:9710:9834/1
+TCGTGTGGATTCTCACCAACTCCACGACGATCCTCTGGTAATGCCCCACCCCTACATGATCTGACGGGTTTTTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:394:3509:3631/1
+TCTACGCCGCATCTAAAATTCGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:395:5171:5295/1
+CAGGAGGCCCTTCCAACGTCGCGATTCGGCTACGGGGCTCTACTCCGAATTCCGTAGACGGGGATAGCTGTCACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:396:8559:8681/1
+ATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTTCTAGAGTAACGTCCACTCGCCTAGGGGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:397:7654:7778/1
+CAAGATGAAGGGTTAATGACCGTCAGGCGAGATACAGACAATAATGCTAATATTATATTTACGCTAGCCTTAATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:398:3687:3811/1
+GCAGAGGTGCACGTATTTGTTTTGATAAAATCTTATGCACGAGAACTCGGCTTTCCACGAGGTTATATGAGAGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:399:4253:4376/1
+ATGACTGCGCGTTAACTCTCATATATATACACTCCAACGTAAAGCTCGTGTTATCATTGATCCGTCTCGCCATAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:400:7465:7590/1
+GTTCTCAGATATGTATTTACGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:401:8336:8461/1
+GCGATTGTGACAAGTACGTGACAGCATTTACAAGCCCGTATAGCTGAGGGCCCAGGGACATATACTTCTGATTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:402:618:741/1
+CCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCATTATCTGACTCCTATGTTCCACACTCAGTCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:403:128:254/1
+CAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACAGTCTGGTAGAACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:404:1281:1406/1
+GAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:405:3955:4079/1
+CTCGTATAGGCTAACGTCTCGGTCTATAGTCAACTTACTGGTTTCATACTACACCTACGTCATACCCACGTGCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:406:8061:8185/1
+ATACTACTTGCGCAACTGGGCCTGGGAGTCTTAATTGCGCCACTGGCAACCTCCAGTACGTATTTCCACTGCTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:407:6374:6498/1
+CTGAGTGGTTAGCCGGAGAAACCAAGCACATCATCAATTCGGCCATTTAGTTACTATGGAAATCTGCGGTTAGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:408:919:1043/1
+GCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:409:4474:4597/1
+ACAGCATTTCGCGATCTCGAAAGCTGAAACCAAGGATCGTACCTCATCAAACTCGGCTCATTAGCGGGCTATGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:410:1267:1391/1
+GAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:411:3157:3281/1
+CCCTAAGTATTGATACGCCCGGCGTTCCGGTGTACTAGAGTACGCCACAATGAGTTGGGCATACAACAAACTAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:412:965:1089/1
+CACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:413:6034:6156/1
+CCTACTAAGGTAATGACGTTTTATGCTCAGAATCATGTATAGACTTAATAACGTGAGCCGCGGAGTGACCATGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:414:7642:7764/1
+ACACCAGTTCTCCAAGATGAAGGGTTAATGACCGTCAGGCGAGATACAGACAATAATGCTAATATTATATTTACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:415:1002:1126/1
+GAATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCGAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:416:6781:6906/1
+ATGAGTTGGGACATGCATAAGAATGACTCTGACGTAAATACCTCCGAGTGGACAGTAATACAAATCGCGCTAAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:417:671:795/1
+CCTATGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACATATCAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:418:1778:1901/1
+ATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:419:7956:8079/1
+GGAGAGAGGACGATGGCACATCAGCAATGAGCAGATAAGACCACACTGAGTAACCAGGAATGCCGCTGGTCAGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:420:526:649/1
+CAAAACTCTGTTATGAATGCCCGGCCAGCTGAACGCAAAACGCATAACAGACTGACGAATTAGCGCCGTGGGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:421:4391:4515/1
+CTTATCTAAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATTCTGGACAGCCTTCCATGGGGCACAAAGGTCTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:422:6718:6843/1
+CGACCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGATATGAGTTGGGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:423:9719:9844/1
+TTCTCACCAACTCCACGACGATCCTCTGGTAATGCCCCACCCCTACATGATCTGACGGGTTTTTACGCTCAAGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:424:730:852/1
+GATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:425:3806:3930/1
+CAATTGCATTCCTCTTGTTCCCAGACTTCTCAGGGTTAGGATAAGACTACGGTGTCTGACCCCGGGTGTAGAATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:426:9024:9150/1
+TAGATCCGTATTATTAAAGCATTCGTTATACAGTGGCTACGGATATTAAATATACCGACAGGCCGACTGTAAAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:427:4435:4556/1
+GGACAGCCTTCCATGGGGCACAAAGGTCTTCTATCCGCTACAGCATTTCGCGATCTCGAAAGCTGAAACCAAGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:428:6465:6589/1
+AGCTCGTATAGCAAGGACTATAGGTCTCTCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCAATCGACATGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:429:8630:8753/1
+GGTCAGGCCTACCTTGGATTGCATTGTATAGTAAGCCATACTAGCTTTCTGCAGAATCTAAAATCGACACCCAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:430:8424:8548/1
+ACGATCAGTGACAGAGGCGCGACATCATGCCTGACGCAGGGAAATTCGGAGAGCTGTATAAGAGTTCGTAGGTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:431:4528:4650/1
+GGCTCATTAGCGGGCTATGATTCAAAGCACACAAGCTTAGAGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:432:8541:8664/1
+GCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTTCTAGAGTAACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:433:6949:7071/1
+AATTTATGGGGATAGGGACGGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAGTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:434:830:951/1
+ATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGGATAATATCCTGGGTGATCTGATCCAAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:435:9778:9902/1
+TTTTTACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTTAACAGGGACCACGCCGCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:436:6955:7078/1
+TGGGGATAGGGACGGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAGTGTGGACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:437:8239:8363/1
+GACAAAATTATCAAGCTTTAGTCTACCATTATATTGTTCGGATGCAAGTGAGCAATAGATCCATAGTCGTGTTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:438:5612:5734/1
+TCTGACACTGCACTGTTCTTGAGGCGCAAGAAACAGCTGGCGGAGGACACGATGAGGGGCCGGGTTTCGTCTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:439:3949:4072/1
+CCTTGTCTCGTATAGGCTAACGTCTCGGTCTATAGTCAACTTACTGGTTTCATACTACACCTACGTCATACCCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:440:7564:7690/1
+GTACGGACGCCGACGTCTGGCGCCGGGAAGTGGGTGTAGACCTGTGTAAATAGCTATATCGGTTAATTCCCTGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:441:7154:7279/1
+GTGGAGGGCGATAACCATGAAGTCGGGTAAACATTCTGGGGCAAGCTACTACTACGGCTGGCCGTGGGCCTATAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:442:6010:6133/1
+TAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAGAATCATGTATAGACTTAATAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:443:1667:1791/1
+CGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGAAGTATTCTCACCAGCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:444:237:360/1
+AAGGACCATCATGAAGGATCATTCCGGACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACTTGCCGTCCAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:445:5734:5856/1
+ACCATCTTTCTGACTGACCTGTATTACGAGGCCGTATCGTGTCTAGACTTATAGTGAAGTCATAGACCATTTAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:446:8855:8979/1
+GAAAGTCACGGGGCAACCCTGTGTAAACTTGCGTAACCTGTCCCTGCGGTACAGTTTCCGAGTTCTTCCTCGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:447:7096:7220/1
+CAGCGACTGATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGCGATAACCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:448:3198:3323/1
+ACGCCACAATGAGTTGGGCATACAACAAACTAAATGAGCCTCTGATCACAGGACAGTTGATGCTATAGGTGGTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:449:9161:9283/1
+GGCAATGACCTCCTATGTCTACTGGGGAACAATAGCTTAGCACCCGTCAGATGCTACCATGCGCCGCGGACCCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:450:3072:3196/1
+CCCGCATCATGGTTCGCCGGTGTCAGCTTGCCGAGCGATATGCTGGCAAGTAATTTATACTAGAGTTGCTCCACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:451:7304:7426/1
+AGTCATTAGGGGTTTACGGTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCTCGGTCCGGTACCGATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:452:1641:1765/1
+GCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:453:709:833/1
+ATTAGGGGTTCTAAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:454:5190:5314/1
+CGCGATTCGGCTACGGGGCTCTACTCCGAATTCCGTAGACGGGGATAGCTGTCACCACAGTCGTTAGCCGATTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:455:1015:1138/1
+ACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCGAGCCTATGAGGAACAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:456:6470:6594/1
+GTATAGCAAGGACTATAGGTCTCTCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCAATCGACATGGAGACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:457:1361:1484/1
+AAGAGTACAGGTGGTTGTCCATCATGCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:458:1317:1440/1
+GTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCCATCATGCCCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:459:9645:9767/1
+AGCGTCATCGGTCGCGTATACCCCGTTGTATTGAATATGGGAACCTTGGCATAGCAGATGAGAGTTCGTGTGGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:460:3995:4117/1
+GTTTCATACTACACCTACGTCATACCCACGTGCAGAATTACCGCGTGGCTAAACCCCTCTCCACAGTCGCAACCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:461:8143:8267/1
+AGCCGGTAGCCTCTGCGTTCTCTTGGCTAACATATTAGGACAACGTTGTGGTGTCATCGTTAATCTGGAGCCCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:462:3425:3549/1
+GGCAATTGCAGTTAAAGACTTCACCCCAAACCCACCCCGAAAGTTATGCGGTATGTGCCCGAATAAGCGTAATGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:463:794:918/1
+TGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:464:5680:5803/1
+GTCTGGGTAGAGGCCCCGCCGAAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCTTTCTGACTGACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:465:4339:4464/1
+TGATAGTAATAATACCGACTACGAATCGAATGAATTGGACGAAGAGTGGTATCTTATCTAAATCGGTCTGGCCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:466:6732:6857/1
+GGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGATATGAGTTGGGACATGCATAAGAATGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:467:4080:4205/1
+AACTAATCACGATCTATGGATACTCGATTGCCCTGCAATCACTAAAAGCGTTTCACCTCTTACGGAACCTATCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:468:942:1065/1
+GTCGTTCGAAATATGCGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:469:5125:5248/1
+TTTGTACCTTTAAGACTACCGCGGGAATAGAAACGGATTCTATGGGCAGGAGGCCCTTCCAACGTCGCGATTCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:470:1297:1419/1
+AGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:471:1504:1630/1
+ACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTCTAGATCTCAAGACGTTTTTGCTCTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:472:6238:6361/1
+GTCCCCATCACGTTAGGCCATATGACATATTCGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGGGAGCAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:473:9205:9330/1
+CGTCAGATGCTACCATGCGCCGCGGACCCGTGAGCTTATGGGTATGTCTTCCAGGAGCCATAGGTCCAAGCCACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:474:2972:3096.dup.2/1
+TTGGACGTGAGGGCTACGTCTGATTCTCCGTACCAGTGGTGAGTAGACTTGGGGCGACGGCCCGTTCATTAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:475:2252:2375/1
+AGATATACCACTGAGAGCGGCACACTTTAGCATAGGCCTTTACCCACTGCGATACAGACACGACATCGGGCGGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:476:5762:5886/1
+AGGCCGTATCGTGTCTAGACTTATAGTGAAGTCATAGACCATTTAAGTGCCAGTGAAAGCAATCGCAGCCCGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:477:8271:8394/1
+ATTGTTCGGATGCAAGTGAGCAATAGATCCATAGTCGTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGATTGTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:478:18:140/1
+TCCAGAGCCGCTAGACACATGTATGACCATCCGGTGTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTAAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:479:1560:1683/1
+TCAAGACGTTTTTGCTCTCGGGCCTGCACAACGTCCGCGAACTGACAAAAGGGAATTTGGCGGGTCCGGCAATGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:480:6418:6542/1
+ATTTAGTTACTATGGAAATCTGCGGTTAGTCAGTCTAACTTGCAGAAAGCTCGTATAGCAAGGACTATAGGTCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:481:1174:1298/1
+AAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTCATGAACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:482:9506:9630/1
+TGGATAAAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAGTGATGTGCGGGGGGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:483:2488:2612/1
+CGACTCGTTCCCGAGAGAGCTTAAAGTGAGTACCCCCCGTGAACCGCAAACAGCCACAGGGAACTTCCTTTGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:484:8539:8661/1
+CCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTTCTAGAGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:485:6808:6932/1
+TCTGACGTAAATACCTCCGAGTGGACAGTAATACAAATCGCGCTAAACCTCTAACAGGGTCGGCTTGTGGTCCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:486:9334:9457/1
+CTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTTCAGTCAGGAGTTGTAGTACCGGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:487:6818:6942/1
+ATACCTCCGAGTGGACAGTAATACAAATCGCGCTAAACCTCTAACAGGGTCGGCTTGTGGTCCAAAGTATCACCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:488:7915:8038/1
+CTGACTTTGGGAGACAGTGGGGAGGAGGTTTGGAGCCGGTTGGAGAGAGGACGATGGCACATCAGCAATGAGCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:489:3546:3669/1
+ATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTCCCAGGGACGGATACCGGTTTCACCGCTATGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:490:2785:2909/1
+TGGCGTGATTCTGATAACTATACTTCGCCGACACGGGGTACCTACGTGGGATCACGGCCAGAGTCGCACAAGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:491:2923:3047/1
+GTCTTGCGGGCCGAGGCGAGAATCTTACGTGCCGTAGCCAAGCATAGGATTGGACGTGAGGGCTACGTCTGATTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:492:8514:8637/1
+AATCTAGGTGAGAGTTTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:493:6399:6522/1
+GCACATCATCAATTCGGCCATTTAGTTACTATGGAAATCTGCGGTTAGTCAGTCTAACTTGCAGAAAGCTCGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:494:1067:1191/1
+TCGTCCGAGCCTATGAGGAACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACACACTGTACATCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:495:7524:7647/1
+GCGCATGAACCGATAGGGACGTGGAGTATAGGAACTTCGGGTACGGACGCCGACGTCTGGCGCCGGGAAGTGGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:496:9599:9724/1
+TGTGCGAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCGTATACCCCGTTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:497:8037:8161/1
+TGCTATAGTGGGAACCCAACTGGCATACTACTTGCGCAACTGGGCCTGGGAGTCTTAATTGCGCCACTGGCAACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:498:9293:9416/1
+CATTACCATAAATATCTAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:499:6597:6720/1
+GTAACGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGTCTCGGAGTAACACTAATAATGGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:500:8089:8214/1
+TCTTAATTGCGCCACTGGCAACCTCCAGTACGTATTTCCACTGCTAGGGTTTATAGCCGGTAGCCTCTGCGTTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:501:9300:9424/1
+ATAAATATCTAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:502:5933:6057/1
+ACAGGGCCATTTCAAATGCGCGTGTCGTGGATGAGTGCTGACCGGACACCTTGACACAGCAATGGACGACTCCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:503:7113:7237/1
+GTGAGAGCAGAACCAACTGAGGCCGAGTACATACGACGCAAGTGGAGGGCGATAACCATGAAGTCGGGTAAACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:504:5427:5550/1
+TAGTTCCCCGGAATGGTGTCCGTATTATAGTGGCAACACCGAATCGGTTGCTAGTTGAGGTCTCCTGCCGTGCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:505:4221:4346/1
+GATTAAGTCTACGCACTGCCTCGATAGGTTTGATGACTGCGCGTTAACTCTCATATATATACACTCCAACGTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:506:7237:7361/1
+AGACATAACACATTCGAAGGGCGTATTGCGTCTTGTCTCGGTAGTTACTCCTACTGCTACGCGTCGAAGTCATTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:507:7848:7972/1
+CATATAAAAGTCTCATTGGATCTAGTTAGTGAGTCGCTCGTTGCGGACAATAGGCACTGTCCTACGTCTGACTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:508:2871:2995/1
+TATCAACAATGCACTACGTTGCTTTGAGGGATACACATCCAGGCGTTGCGATGTCTTGCGGGCCGAGGCGAGAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:509:6582:6706/1
+CCGTCATCCGGACACGTAACGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGTCTCGGAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:510:786:909/1
+CATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGCGAAACACTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:511:9266:9391/1
+AGGTCCAAGCCACGGTTATCTCAGGAACATTACCATAAATATCTAGCGATCACTATGACACGGGTAGACTGCGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:512:8890:9012/1
+ACCTGTCCCTGCGGTACAGTTTCCGAGTTCTTCCTCGTGAGCCGTCACCTCTTATAGCTCGGCGAGAAAAGCCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:513:3502:3625/1
+CCGCCTTTCTACGCCGCATCTAAAATTCGCGGGCTATCGCGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:514:9314:9438/1
+ATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTTCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:515:4255:4378/1
+GACTGCGCGTTAACTCTCATATATATACACTCCAACGTAAAGCTCGTGTTATCATTGATCCGTCTCGCCATAGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:516:112:235/1
+TATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:517:3118:3243/1
+CAAGTAATTTATACTAGAGTTGCTCCACCGATCCACTTTCCCTAAGTATTGATACGCCCGGCGTTCCGGTGTACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:518:9695:9819/1
+ATAGCAGATGAGAGTTCGTGTGGATTCTCACCAACTCCACGACGATCCTCTGGTAATGCCCCACCCCTACATGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:519:1908:2033/1
+TAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAACACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:520:7604:7728/1
+CCTGTGTAAATAGCTATATCGGTTAATTCCCTGGTAAAACACCAGTTCTCCAAGATGAAGGGTTAATGACCGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:521:4795:4919/1
+TTTGTCTTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCATCCGCTGGAGCTAGATCGTCTACATGGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:522:3847:3969/1
+TAAGACTACGGTGTCTGACCCCGGGTGTAGAATACAGTGTGATAGACCCTGTCTTAGGCTTGGTCCACGAGCAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:523:3373:3497/1
+ACCCATCGGGGTTTATGAAGACACCATGCACAATGCGACGTTTCTGCCGATTGGCAATTGCAGTTAAAGACTTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:524:8130:8254/1
+TGCTAGGGTTTATAGCCGGTAGCCTCTGCGTTCTCTTGGCTAACATATTAGGACAACGTTGTGGTGTCATCGTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:525:2410:2533/1
+GTCATATTGGTTCGATGCTAAGCCTGGGATACCGTCACCCCCACATCTCGACGCTTTGATAGTTGTTCACACACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:526:3107:3230/1
+CGATATGCTGGCAAGTAATTTATACTAGAGTTGCTCCACCGATCCACTTTCCCTAAGTATTGATACGCCCGGCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:527:145:268/1
+GTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACAGTCTGGTAGAACGGGTTGATGCCCGACCAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:528:2336:2461/1
+TATTGTCTCGCCCTGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGGATGCTGAAAAGGGCTCGTGCACTAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:529:8011:8136/1
+AGGAATGCCGCTGGTCAGGTTCCGAATGCTATAGTGGGAACCCAACTGGCATACTACTTGCGCAACTGGGCCTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:530:8307:8431/1
+GTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGATTGTGACAAGTACGTGACAGCATTTACAAGCCCGTATAGCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:531:3477:3601/1
+ATGTGCCCGAATAAGCGTAATGGGTCCGCCTTTCTACGCCGCATCTAAAATTCGCGGGCTATCGCGCGAATGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:532:8123:8246/1
+TTTCCACTGCTAGGGTTTATAGCCGGTAGCCTCTGCGTTCTCTTGGCTAACATATTAGGACAACGTTGTGGTGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:533:7483:7606/1
+ACGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGGGACGTGGAGTATAGGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:534:7375:7499/1
+ATACGGAGGCAACCAGTCATTGGTGGGAACTAGTACGTGAATGGCGCACCGGAAATTATATCCCTGGATTCGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:535:7316:7440/1
+TTTACGGTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCTCGGTCCGGTACCGATACGGAGGCAACCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:536:2141:2266/1
+ACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCTTGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:537:953:1078/1
+TATGCGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGCCGGTTCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:538:5924:6048/1
+CGTACCCTTACAGGGCCATTTCAAATGCGCGTGTCGTGGATGAGTGCTGACCGGACACCTTGACACAGCAATGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:539:2451:2574/1
+CACATCTCGACGCTTTGATAGTTGTTCACACACCCCGCGACTCGTTCCCGAGAGAGCTTAAAGTGAGTACCCCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:540:1119:1243/1
+GCAACCCCACACACTGTACATCCAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:541:8816:8939/1
+ACGCTAACTTGTGATCCAACTATCTTACTCCGCTTCCATGAAAGTCACGGGGCAACCCTGTGTAAACTTGCGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:542:4226:4351/1
+AGTCTACGCACTGCCTCGATAGGTTTGATGACTGCGCGTTAACTCTCATATATATACACTCCAACGTAAAGCTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:543:9422:9545/1
+AATATCGTTGTTCAAGACCCACGCTACAATCGGAAGCAGCTTTAAGGCGGGCCTCCCTTATAGCATTCGCGGCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:544:2431:2554/1
+GCCTGGGATACCGTCACCCCCACATCTCGACGCTTTGATAGTTGTTCACACACCCCGCGACTCGTTCCCGAGAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:545:1724:1846/1
+AAGTATTCTCACCAGCCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:546:998:1123/1
+GAAAGAATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:547:9770:9894/1
+CTGACGGGTTTTTACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTTAACAGGGACCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:548:2856:2981/1
+GGGTAGTTAAATCCGTATCAACAATGCACTACGTTGCTTTGAGGGATACACATCCAGGCGTTGCGATGTCTTGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:549:6269:6392.dup.2/1
+CGGCATTATGAATAGGTATGCAAGTCCCACAGTAGGGGAGCAACCTTTGCCAATTTACACGTTAACGCATGCCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:550:5288:5411/1
+TCCTGAACGGCCCCCACTTTACGCGGGCATGGTCCCATTATGAGGTAGTGTTTAGCGTGGAGACGCGCATAAAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:551:745:869/1
+GTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:552:9442:9567/1
+ACGCTACAATCGGAAGCAGCTTTAAGGCGGGCCTCCCTTATAGCATTCGCGGCTTCCGTTACGATGGATAAAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:553:9235:9357/1
+TGAGCTTATGGGTATGTCTTCCAGGAGCCATAGGTCCAAGCCACGGTTATCTCAGGAACATTACCATAAATATCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:554:9758:9881/1
+CCCCTACATGATCTGACGGGTTTTTACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:555:7349:7474/1
+TGCTTGGTAATCTCGGTCCGGTACCGATACGGAGGCAACCAGTCATTGGTGGGAACTAGTACGTGAATGGCGCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:556:250:374/1
+AAGGATCATTCCGGACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACTTGCCGTCCAAGTGCAATGGATCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:557:6135:6259/1
+GAGTCACAACTCAACAACTAACGTTGGGAGAAATAAAAGGAGGGGTAAGTCCTATCGTTCCGCACGGAGATTGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:558:9110:9234/1
+CGTCTTGGTCCTCGGCTATACAACCTATGTACAGGGTCACTTTATGAGACCGGCAATGACCTCCTATGTCTACTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:559:6695:6817/1
+GACAGGTTTTCACCAGCAGGGACCGACCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:560:108:231/1
+AGGATATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:561:9461:9584/1
+CTTTAAGGCGGGCCTCCCTTATAGCATTCGCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:562:1763:1886/1
+TTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:563:2821:2944/1
+GGTACCTACGTGGGATCACGGCCAGAGTCGCACAAGGGTAGTTAAATCCGTATCAACAATGCACTACGTTGCTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:564:9512:9634/1
+AAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAGTGATGTGCGGGGGGGCGTGTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:565:5258:5383/1
+CGATTCAGCCTCAGCGCCTAATACCGGCAATCCTGAACGGCCCCCACTTTACGCGGGCATGGTCCCATTATGAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:566:1723:1848/1
+GAAGTATTCTCACCAGCCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:567:71:196/1
+GCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTGCCCAATCACGTTCCTGCCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:568:2859:2984/1
+TAGTTAAATCCGTATCAACAATGCACTACGTTGCTTTGAGGGATACACATCCAGGCGTTGCGATGTCTTGCGGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:569:6690:6813/1
+GCCCAGACAGGTTTTCACCAGCAGGGACCGACCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:570:6590:6714/1
+CGGACACGTAACGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGTCTCGGAGTAACACTAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:571:1624:1747/1
+TCCGGCAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:572:1633:1755/1
+GCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:573:8532:8656/1
+TCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:574:9775:9895/1
+GGGTTTTTACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTTAACAGGGACCACGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:575:6586:6708.dup.2/1
+CATCCGGACACGTAACGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGTCTCGGAGTAACACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:576:5464:5589/1
+ACCGAATCGGTTGCTAGTTGAGGTCTCCTGCCGTGCAATGCACCTTAAAGTGCATCACGACTTAAGTTCGTTAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:577:8348:8471/1
+AGTACGTGACAGCATTTACAAGCCCGTATAGCTGAGGGCCCAGGGACATATACTTCTGATTGTCGCGGATCGCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:578:1784:1906/1
+CACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:579:4359:4483/1
+ACGAATCGAATGAATTGGACGAAGAGTGGTATCTTATCTAAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:580:7286:7407/1
+CCTACTGCTACGCGTCGAAGTCATTAGGGGTTTACGGTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:581:1034:1157/1
+AATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCGAGCCTATGAGGAACAGTCCATGACATTTCTTACCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:582:4914:5036/1
+GCTGGGTTCGGCGTCAACTCCCAGTGCTGTACCTGGAGGATCCGCGGGAACGTCTTTTTATAGTCCCGGATGTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:583:580:705/1
+ACGAATTAGCGCCGTGGGGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:584:4919:5044/1
+GTTCGGCGTCAACTCCCAGTGCTGTACCTGGAGGATCCGCGGGAACGTCTTTTTATAGTCCCGGATGTCACTCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:585:3344:3468/1
+CCGGGTGGTCCACAGATGGCGCTCTAATTACCCATCGGGGTTTATGAAGACACCATGCACAATGCGACGTTTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:586:4854:4977/1
+GATCGTCTACATGGCCGCAACGCCGTAACGGAGTCCTTTGGTGTACGTATGGCTAAATTCGCTGGGTTCGGCGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:587:2119:2240/1
+GCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:588:9583:9707/1
+GTCCGGCGCCCCATCATGTGCGAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:589:2198:2322/1
+ACAGTCTACAACCTTGATACATTGAACCCTCCAAGCTATGTTCGTCATGCTCGGAGATATACCACTGAGAGCGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:590:7203:7327/1
+TACTACGGCTGGCCGTGGGCCTATAACGCCACATAGACATAACACATTCGAAGGGCGTATTGCGTCTTGTCTCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:591:6000:6124/1
+GACTCCCAACTAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAGAATCATGTATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:592:4788:4913/1
+TGAACGGTTTGTCTTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCATCCGCTGGAGCTAGATCGTCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:593:3630:3754/1
+CTCGGATCTACGAGGGGGATCCGCCAGGTGGTACGCAGTACCGACAATCGATTGCCGGCAGAGGTGCACGTATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:594:9075:9199/1
+ATACCGACAGGCCGACTGTAAAGGGGAGCGAAGGACGTCTTGGTCCTCGGCTATACAACCTATGTACAGGGTCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:595:5680:5803.dup.2/1
+GTCTGGGTAGAGGCCCCGCCGAAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCTTTCTGACTGACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:596:1085:1210/1
+AACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACACACTGTACATCCAACAGGTGTCGATCTAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:597:8740:8862/1
+GACAGGCAATCCCCATTTGTTATATTTTCTACTGTCAGCTCTGCCCACGCAACCTTACTACCAGAAATCTTCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:598:4438:4562/1
+CAGCCTTCCATGGGGCACAAAGGTCTTCTATCCGCTACAGCATTTCGCGATCTCGAAAGCTGAAACCAAGGATCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:599:7390:7515/1
+GTCATTGGTGGGAACTAGTACGTGAATGGCGCACCGGAAATTATATCCCTGGATTCGGTTTTATGTCGTACGCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:600:3587:3710/1
+GTCCCAGGGACGGATACCGGTTTCACCGCTATGCCCATTGGAACTCGGATCTACGAGGGGGATCCGCCAGGTGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:601:3717:3840/1
+TCTTATGCACGAGAACTCGGCTTTCCACGAGGTTATATGAGAGTCTATGACAAATCGTACGCTATTTGCATCCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:602:8529:8653/1
+TTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:603:5153:5278/1
+AGAAACGGATTCTATGGGCAGGAGGCCCTTCCAACGTCGCGATTCGGCTACGGGGCTCTACTCCGAATTCCGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:604:8879:9002/1
+AAACTTGCGTAACCTGTCCCTGCGGTACAGTTTCCGAGTTCTTCCTCGTGAGCCGTCACCTCTTATAGCTCGGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:605:5523:5646/1
+ACTTAAGTTCGTTAGCCAAGGGGTACGGTGTCGCCTATGCGGCTTGGTTACCTTTGCGCGTAATTGGGTCATCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:606:2052:2176/1
+TGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCTCTTCCGTGCCTTACTACCGCTCGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:607:5206:5330/1
+GGCTCTACTCCGAATTCCGTAGACGGGGATAGCTGTCACCACAGTCGTTAGCCGATTCAGCCTCAGCGCCTAATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:608:1166:1290/1
+GCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:609:4903:5027/1
+TGGCTAAATTCGCTGGGTTCGGCGTCAACTCCCAGTGCTGTACCTGGAGGATCCGCGGGAACGTCTTTTTATAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:610:4702:4826/1
+CGGCATGACGCCAGTGGTCCCCAGAGCAAGCACATTGTTGGATTTTCATGCCAAGCCACGGAAGGTAAAGTAAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:611:7483:7605/1
+ACGCAGCGTATCTGGCTCGAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGGGACGTGGAGTATAGGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:612:7172:7297/1
+GAAGTCGGGTAAACATTCTGGGGCAAGCTACTACTACGGCTGGCCGTGGGCCTATAACGCCACATAGACATAACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:613:9176:9298/1
+TGTCTACTGGGGAACAATAGCTTAGCACCCGTCAGATGCTACCATGCGCCGCGGACCCGTGAGCTTATGGGTATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:614:9511:9634/1
+AAAACATCCGTGTGTACAGATTCGAAAGACATCCCGACCGAAAGCAAACACGAGTGATGTGCGGGGGGGCGTGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:615:7909:8033/1
+CTACGTCTGACTTTGGGAGACAGTGGGGAGGAGGTTTGGAGCCGGTTGGAGAGAGGACGATGGCACATCAGCAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:616:6824:6946/1
+CCGAGTGGACAGTAATACAAATCGCGCTAAACCTCTAACAGGGTCGGCTTGTGGTCCAAAGTATCACCTTAGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:617:5691:5816/1
+GGCCCCGCCGAAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCTTTCTGACTGACCTGTATTACGAGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:618:7415:7539/1
+ATGGCGCACCGGAAATTATATCCCTGGATTCGGTTTTATGTCGTACGCCCGTTCTCAGATATGTATTTACGCAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:619:1637:1761/1
+GCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:620:7579:7701/1
+TCTGGCGCCGGGAAGTGGGTGTAGACCTGTGTAAATAGCTATATCGGTTAATTCCCTGGTAAAACACCAGTTCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:621:5815:5940/1
+TGAAAGCAATCGCAGCCCGATACTCTGTAAACTAGATCCATCCCGTAGCACCGGCCCCCCAGTTTAGGGGGCTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:622:3553:3677/1
+CGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTCCCAGGGACGGATACCGGTTTCACCGCTATGCCCATTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:623:2439:2563/1
+TACCGTCACCCCCACATCTCGACGCTTTGATAGTTGTTCACACACCCCGCGACTCGTTCCCGAGAGAGCTTAAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:624:752:876/1
+ACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:625:5182:5304/1
+TCCAACGTCGCGATTCGGCTACGGGGCTCTACTCCGAATTCCGTAGACGGGGATAGCTGTCACCACAGTCGTTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:626:2112:2236/1
+TACTACCGCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:627:2394:2516/1
+AGGGCTCGTGCACTAGGTCATATTGGTTCGATGCTAAGCCTGGGATACCGTCACCCCCACATCTCGACGCTTTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:628:6013:6137/1
+GGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCTCAGAATCATGTATAGACTTAATAACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:629:7617:7740/1
+CTATATCGGTTAATTCCCTGGTAAAACACCAGTTCTCCAAGATGAAGGGTTAATGACCGTCAGGCGAGATACAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:630:7166:7290/1
+AACCATGAAGTCGGGTAAACATTCTGGGGCAAGCTACTACTACGGCTGGCCGTGGGCCTATAACGCCACATAGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:631:350:475/1
+CGCGAACAGTCTTAAAATGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:632:2993:3115/1
+GATTCTCCGTACCAGTGGTGAGTAGACTTGGGGCGACGGCCCGTTCATTAACTCCACAAAAGTTTGTCCCCCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:633:1769:1891/1
+GTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:634:4568:4691/1
+AGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCGCAGACTTAATCGGCTGCCTAAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:635:9328:9452/1
+GGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTTCAGTCAGGAGTTGTAGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:636:4398:4521/1
+AAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATTCTGGACAGCCTTCCATGGGGCACAAAGGTCTTCTATCCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:637:9799:9924/1
+AGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTTAACAGGGACCACGCCGCAAAATGCTATTTTTACAGACGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:638:2345:2468/1
+GCCCTGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGGATGCTGAAAAGGGCTCGTGCACTAGGTCATATTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:639:1761:1885/1
+GTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:640:6963:7086/1
+GGGACGGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAGTGTGGACATTCTTGCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:641:8529:8653.dup.2/1
+TTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCCAAGACTCTCAGTGAGTATTGCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:642:6967:7090/1
+CGGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAGTGTGGACATTCTTGCATCCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:643:744:867/1
+AGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:644:2790:2914/1
+TGATTCTGATAACTATACTTCGCCGACACGGGGTACCTACGTGGGATCACGGCCAGAGTCGCACAAGGGTAGTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:645:2917:3041/1
+TGCGATGTCTTGCGGGCCGAGGCGAGAATCTTACGTGCCGTAGCCAAGCATAGGATTGGACGTGAGGGCTACGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:646:4986:5110/1
+TCACTCTTTAGGCAGACTAGGCGTCCTGCTAATACTATCAAAGACGAGGACCACAATTGGTACTCGCGCTCCTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:647:9063:9187/1
+CGGATATTAAATATACCGACAGGCCGACTGTAAAGGGGAGCGAAGGACGTCTTGGTCCTCGGCTATACAACCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:648:2098:2222/1
+GCTCTTCCGTGCCTTACTACCGCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:649:944:1068/1
+CGTTCGAAATATGCGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:650:348:472/1
+CACGCGAACAGTCTTAAAATGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:651:8966:9090/1
+GGTTAGCTCATACCGACTTTCGATTGATCATGTTTTCTCACTGTCCGTTAACGGAGATTAGATCCGTATTATTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:652:9309:9433/1
+TAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTCAAGCCGAGCATAAGGAACAAAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:653:3374:3499/1
+CCCATCGGGGTTTATGAAGACACCATGCACAATGCGACGTTTCTGCCGATTGGCAATTGCAGTTAAAGACTTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:654:6381:6506/1
+GTTAGCCGGAGAAACCAAGCACATCATCAATTCGGCCATTTAGTTACTATGGAAATCTGCGGTTAGTCAGTCTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:655:3879:4002/1
+TACAGTGTGATAGACCCTGTCTTAGGCTTGGTCCACGAGCAGCGTTAGAAAAAAAATATCGGGTGTAATCCCTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:656:6537:6661/1
+TGGAGACAGTGTATCGCCAACGATCGTCGGTAAGTGCGTAGGGGACCGTCATCCGGACACGTAACGTATTGACTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:657:2999:3122/1
+CCGTACCAGTGGTGAGTAGACTTGGGGCGACGGCCCGTTCATTAACTCCACAAAAGTTTGTCCCCCGTCCGGCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:658:5575:5699/1
+ACAAAAACCGATAGTGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCGAGGCGCGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:659:7392:7516/1
+CTAGACTCACGAATCACAATTACTGTAGTACTAAATGACAGTCTGCATTCTACTTAGCGCTTATGATCTCGCACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:660:8250:8373/1
+GCGATATTTTTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:661:2128:2251/1
+AATTCATAGCCGGACATTATACCTCATGGACACGTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTGAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:662:5784:5908/1
+AGGCAGTCGGTCTTGGCTCACAGGTAGCTGCTGCCCGAACTCTTAAACAAGCTAGCAAGCTAATTAGCCGTCATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:663:7678:7800/1
+TGCCAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCGCAGATAAGGGCATGAACGGGTTTTATACCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:664:4517:4643/1
+CGCACGCGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGTATGTTTAGGTGGCATATTAACTGCGTCACGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:665:4208:4330/1
+CCGATATACGCCAGGTAATTCACGATTTGTCGCCCCATGCGTGAGGATTTTCGGCGGCAATTAGCAGTCTGTGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:666:3334:3457/1
+CGACAATGGGTAAGGTCGAGAAGTTCTGCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGGAGCTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:667:8692:8816/1
+GCAGGAATAGCTGATGGTAGAATTGCGGAGTAATTGGATCGATTTTACGACCCAAGGTTACAACCGCCTAAGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:668:1214:1337/1
+TGTACGAGAGTTGGTTGCGGAAAGGAGAGTGCGGTAGCAAGACCCTTTAAGCAAAATCTACACGCAGACCGCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:669:6143:6266/1
+GCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:670:3185:3307/1
+CAAAGACTATAGTATACGTGCGACCTTAAAGGCACGCTATTGCATGAGTGTTCCTTTACCCATCCGTCAGCACACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:671:219:342/1
+ATAAAACCACCCCCAGCGCATTCCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:672:7360:7484/1
+TAATTTCCTCGGGTTACAGTTTCATGGCTGCACTAGACTCACGAATCACAATTACTGTAGTACTAAATGACAGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:673:2468:2590/1
+TTGTATATTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTACTTAACTTGCGCCATCCCCAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:674:9749:9874/1
+TTCTTCTGTGCGTTGTGCTTAGCGTGAAATGACGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCGAACCGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:675:8742:8865/1
+CCCAAGGTTACAACCGCCTAAGAGAAGACGCACTGGATATTTGAACCAACGCCCCCAGCGGTGGAATGTTAATCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:676:1378:1502/1
+TCGGGCATCGGTGAATACGGTTTCATCGTCTCGAACTAAGACAAGGGGTTATGTAAATAAACGTTTTGCGAGCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:677:218:340/1
+AATAAAACCACCCCCAGCGCATTCCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:678:522:647/1
+AGCGAAGTAATTATCGCGAGTGCCGATTAGAAGCCGATCTTGGGGATGACTGTACTAACGTCTGTCGGATAGTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:679:7595:7718/1
+TTACCATATCCAGACCGGCGTTCCCGCCGTCCGCGACATGCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:680:6179:6302/1
+CAGACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCGGCAGTGAGAGATGCGGGACCTCATCGGGCAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:681:7204:7328/1
+TCATTCGTTGGAAAGAAAGCGGGTCTCGTCACAATCCTATGTAGCTAAATTGATGATGGACTAAAACATAGGCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:682:6592:6715/1
+GATAATAAGTTGCAACGTTCCAGCCTTACCTATAGATGCTCGTCATAGTCGATTTCTTGTTTTCTCAGACATGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:683:4965:5089/1
+CGGACGTCGAATCGATTTTTGTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:684:2746:2870/1
+CTACTGTGATGAATGGACCTTCTACCGATCGGAGCCCTGGTTTTGGCTTTAATATGTGGAGATAATTGCAATAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:685:5399:5521/1
+TCCAGGGTTGCTGAACGACCACCGTCTAACTGACGTTCGCGTCGTCCGTGACAGATCGAAATCTAGCAGCCGCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:686:4494:4619/1
+TCGGAGTACCTAATTTGTGTGAACGCACGCGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGTATGTTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:687:291:415/1
+GAAGTTCCGTTCTGTCCAAGGCTCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:688:5506:5628/1
+ACAGCGGAAGTTAGATGAGGGTCGATAAGTCTGCCTAGAGTGGCTGCTGAATACGTACGCCGTATATTTACAAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:689:1654:1778/1
+TGTGGCTATGTTAAATTAAGCGTACAACCATCTAGTGCGCAACGTCGCCGCCAGCAGATTGCCCCGTGGATCTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:690:8281:8403/1
+CCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAGGCGCGAATTACTATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:691:9075:9199/1
+CCCGACATTCCTAGACGATCGTCATGGATTTTGAACGCACGCATACGCTATCGAGTTCCGCAGAGTTCACTATATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:692:525:648/1
+GAAGTAATTATCGCGAGTGCCGATTAGAAGCCGATCTTGGGGATGACTGTACTAACGTCTGTCGGATAGTGTTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:693:593:718/1
+GTGTTCGCTCAACCGCCACTTGGTCGTTTCTACGCCCGTGGTGCTGAGCGCCTCCTAGTCTACGGCTAGGATCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:694:3689:3811/1
+CAGGAAGTTCAGGCATCTGTACTCTTTGCATTGGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:695:969:1092/1
+GATACCTCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGGATGTGACTGTGTCGATGTGATTATCTCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:696:1852:1977/1
+AAAACATGTCGAAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAACGTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:697:7313:7436/1
+ACGTCGCCCATCGTCCGTTGCTGGGGGGATTGCGTGACCATAACAATTAATTTCCTCGGGTTACAGTTTCATGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:698:8638:8762/1
+TATACAGTTGTCAATGACAATACGAGCCACCTCATCTGACGCCCGGAGTGAACCGCAGGAATAGCTGATGGTAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:699:6950:7075/1
+GTCGCTGCGTCAGATGACGACGTCCGACTCTTACATGCATTCAATACGAAGAACTAGGACCCCCCATCGTGCCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:700:1476:1599/1
+AGGTCGCCGCTCAAGAGCCTTCTGCACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:701:7694:7817/1
+ACACGGATTTAACTTCTGCTCCCACGCGCAGATAAGGGCATGAACGGGTTTTATACCGGTTCATCCCATTAGATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:702:7010:7133/1
+CCCCCATCGTGCCTATTAGGAGGATTGCAACAGCATTAAGGAGTTTCTTTCCCCGGAACTTAGGGGCTCCTGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:703:1229:1352/1
+TGCGGAAAGGAGAGTGCGGTAGCAAGACCCTTTAAGCAAAATCTACACGCAGACCGCTATGGGATTTATGGCACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:704:993:1118/1
+TAGACGCATTTGTTATGTGAGGATGTGACTGTGTCGATGTGATTATCTCCATTCACCAAACGCATCTGGCAAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:705:7750:7874/1
+CGGTTCATCCCATTAGATTCTTCGGAAATCGGGGCGCGACCGATGTAGAGCCGGTGTAATAGCACATCCATCCGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:706:1091:1214/1
+CGATGGAAGCTCACGAGCCAATGAAGAGACCACGTTACTCTATGGATAAGACCTAGTCACGGCAGGTCCCGGGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:707:4067:4190/1
+GCAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGACTTGAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:708:6152:6275/1
+TAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCGGCAGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:709:6455:6578/1
+GATCTTCAGCTCAGATGAACGCGCCCGGGCCACTACAACTGTCGGGGTGATTAGTATATAAAGGGCGCCCCGGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:710:5962:6086/1
+TTGTTCCTTTCCGCCAACTGATCTGGGGTCCTTTGGGGCTATTGGCCGGTCCAGGTAGCCCCAGGACCCAATGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:711:796:919/1
+GCAGCGCCGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCTGCACTCGGGCACGAGGCGGGATGCCGTGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:712:2078:2201/1
+GGCGTTAAGACGGAGCTGATGGTAAGGAGGACGGGCCTGCCGCTGAGGACAATTCATAGCCGGACATTATACCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:713:1944:2067/1
+CTCCGCAAGTGGACGATAAGACTTACGTCAGCTACTCAATACAGACGCATGGTATATATCATCTCGGGTTCTCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:714:4013:4137/1
+CTTCAGAGCGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:715:5319:5442/1
+ACGCGTGATAGCAAGTCACGAACCCCTCCTTCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:716:6781:6906/1
+GTTGGAGGCGGCCATAAGGTACGCTTGTGTCTCAACTCTGAGTGCGAACCGAGAGTAATGCGAACAACCGTACCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:717:2741:2866/1
+CACCGCTACTGTGATGAATGGACCTTCTACCGATCGGAGCCCTGGTTTTGGCTTTAATATGTGGAGATAATTGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:718:1688:1811/1
+GTGCGCAACGTCGCCGCCAGCAGATTGCCCCGTGGATCTGTCGGAAAGGCGATCAACAATACGGGCACACAGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:719:5071:5194/1
+AAGCGTATAGGTTCTACCCAGAAATCATTCCACTCCGCTCCCTGCGAGTCAACGCCAGAACTTGTCCAGTGGTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:720:7432:7556/1
+GTCTGCATTCTACTTAGCGCTTATGATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAAGGCGAAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:721:5664:5787/1
+ATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:722:8238:8363/1
+CGTCTTCCCTGAGCGATATTTTTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:723:7717:7840/1
+ACGCGCAGATAAGGGCATGAACGGGTTTTATACCGGTTCATCCCATTAGATTCTTCGGAAATCGGGGCGCGACCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:724:1022:1145/1
+TGTGTCGATGTGATTATCTCCATTCACCAAACGCATCTGGCAAAAGAGACCAAACCACCGGTCGGACGTCGATGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:725:8968:9093/1
+GCAGAATTTTTGACAAAAGTCTTCTTTACCAGAGATTGGCAGCCCGGCGTTGGTCATGGTGCTGTTACCAGTCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:726:5589:5712/1
+TGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:727:1621:1745/1
+GGACCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAATTAAGCGTACAACCATCTAGTGCGCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:728:784:908/1
+AATGCTCAACCGGCAGCGCCGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCTGCACTCGGGCACGAGGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:729:9471:9596/1
+AATTCCGTTCATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTGTAGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:730:3416:3542/1
+CACGAATTAGTATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGACTTCCGTCCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:731:6828:6952/1
+ACCGAGAGTAATGCGAACAACCGTACCATAAACATGGCCCGTCAATTATATCGGTAAACCATCTCAGCAGCAGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:732:2017:2141/1
+GTCGTGCCTGGGTAACTTTCCAAGACCCCGGATCGCGCGGCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:733:1920:2043/1
+ACGTCAGAGATTTAGTCAACCGCACTCCGCAAGTGGACGATAAGACTTACGTCAGCTACTCAATACAGACGCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:734:3856:3979/1
+ATACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTAGACGCGTAACTTGACACTATCGTTTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:735:8122:8246/1
+GCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGCACAAAAGACAACATGCTCTCTGAGCTCACCATAGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:736:813:937/1
+GACGATGGTTCAGTGTTTATTGTCCCCTGCACTCGGGCACGAGGCGGGATGCCGTGAATAGCTGTTTGTCTGATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:737:5889:6011/1
+GATCCAACATTTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGAACCGAGCGAGAGTCGGTTTGCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:738:1129:1253/1
+TCTATGGATAAGACCTAGTCACGGCAGGTCCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATCTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:739:5734:5859/1
+ATCCTATTGTCTCATGCTTTTCCTGGTGTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTCTTGGCTCACAGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:740:8918:9043/1
+TGAGTTAATGCACCACTCGAGTATACAGCCTAGACCATGAGTGGCCGACTGCAGAATTTTTGACAAAAGTCTTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:741:5447:5570/1
+TGACAGATCGAAATCTAGCAGCCGCATATAAGTACGACTCTTAAAGCTATAACATTTGAACAGCGGAAGTTAGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:742:4712:4836/1
+GCACTACATTTTTATGCCAATTGCTACTTGCGTGGGACGCAGTTGAATAGCCGAATTAGCGTTACACAAAGCAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:743:3642:3765/1
+AACTCGCTCTCTCATAAAAGATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:744:3674:3799/1
+TAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCATTGGGAGCGTGGCTAATTATTGCTAAGATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:745:6611:6734/1
+CCAGCCTTACCTATAGATGCTCGTCATAGTCGATTTCTTGTTTTCTCAGACATGTATTGTACAAAAGACTGCGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:746:2783:2907/1
+TGGTTTTGGCTTTAATATGTGGAGATAATTGCAATAGAGCATGTATTTTATCACTCAAATTCACCCGATTCGGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:747:8698:8821/1
+ATAGCTGATGGTAGAATTGCGGAGTAATTGGATCGATTTTACGACCCAAGGTTACAACCGCCTAAGAGAAGACGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:748:6438:6562/1
+TTAGATGTATCGCAGCTGATCTTCAGCTCAGATGAACGCGCCCGGGCCACTACAACTGTCGGGGTGATTAGTATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:749:3113:3238/1
+GGGGCGTCCGGGGAGTTTTCCACTTTGTTCAAGGCTGAACGCAAGTGTATGTACTCTTGACTACATTATTGCCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:750:4773:4898/1
+TTACACAAAGCAAGAGACGTGACATCCGATAGACTGATTTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:751:566:689/1
+GATGACTGTACTAACGTCTGTCGGATAGTGTTCGCTCAACCGCCACTTGGTCGTTTCTACGCCCGTGGTGCTGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:752:7128:7250/1
+GCTCAGTCCTACTCAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACTACAAGAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:753:7969:8093/1
+ATTATTGTGGAACAGATGACTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCTCAAACACCGCAATTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:754:9071:9194/1
+ACGTCCCGACATTCCTAGACGATCGTCATGGATTTTGAACGCACGCATACGCTATCGAGTTCCGCAGAGTTCACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:755:7827:7950/1
+GGCGCACCGCAACGTGATGAACCCCTAAGGTGTTCTGATGCACCGGTTAGGACCTTCCGAATACTACACTTCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:756:8531:8654/1
+CACTCACGTATGGGTAGTGGAAGTTGCTACTATAATACACAGCACGGTGGGGCCGATGCGCCACAAAATTAACGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:757:6223:6347/1
+AGTGAGAGATGCGGGACCTCATCGGGCAGTTTCGACCCCGGAATGACCGGCGAACCTAGAAGAAACGGTATCAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:758:8521:8644/1
+CTCCCGATTTCACTCACGTATGGGTAGTGGAAGTTGCTACTATAATACACAGCACGGTGGGGCCGATGCGCCACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:759:362:487/1
+AAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGCCATAACGGTCCACTAGCAAGTGTTCAACCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:760:1513:1636/1
+TCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTACGCTACGCGCCTGTATATGTCATTTGCCGGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:761:7884:8007/1
+CGAATACTACACTTCAAGCTGGAATTGATCACGATCGGCTCTGTATCGATATATTATCCGTATGCACCCGCACGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:762:8259:8382/1
+TTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:763:5206:5330/1
+TACTGCTGGTTATTATAGGAGCAAGAGGCCAATTCTGGAAGTTTTGCTATTCGAAATCCTACAGGATAGAGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:764:9145:9268/1
+TATATGGCACCTACGCTGAGGGGCCGCGAGGTTCCGCTGCGCTCATGACTACACTTCCGTATAGGAGAATAGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:765:1595:1716/1
+CGAAAATGCACGTGGGGACACCTGACGGACCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:766:5483:5605/1
+ACTCTTAAAGCTATAACATTTGAACAGCGGAAGTTAGATGAGGGTCGATAAGTCTGCCTAGAGTGGCTGCTGAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:767:549:673/1
+TAGAAGCCGATCTTGGGGATGACTGTACTAACGTCTGTCGGATAGTGTTCGCTCAACCGCCACTTGGTCGTTTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:768:2376:2499/1
+ACGATTTATTGAAAGGGAATCGACATCTTTCGCGCTCGACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:769:1333:1455/1
+CTATATAAAGAGGTTGTTTGTGTGGACAGATAAGTCATATATGATTCGGGCATCGGTGAATACGGTTTCATCGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:770:3065:3188/1
+TTGGCTATGCAATGTTCGAATCGTTGTCAGGGACGTAGCATACACACCGGGGCGTCCGGGGAGTTTTCCACTTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:771:454:578/1
+TAGATTACATTCCGGGAGGTTCGACAAGGGCATCCTTGGCGTAAGAGGCCGCGGCACAAATTAGGTTGAGCGAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:772:211:333/1
+CCGCTGGAATAAAACCACCCCCAGCGCATTCCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:773:1258:1382/1
+CTTTAAGCAAAATCTACACGCAGACCGCTATGGGATTTATGGCACAATGGGAATACCGCCCCCGGAATAAGGCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:774:2938:3061/1
+TTTGACGTGTTTGATTATCTCAGAACGAGCTACACAAGGCGGCCGCGGTGATCATAAATCCCAAGAGTTATCGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:775:2697:2821/1
+CTAATGTAACCGGGTGCAGAGACAGCTAACACACGATGCACTGTCACCGCTACTGTGATGAATGGACCTTCTACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:776:8131:8255/1
+GGAATAGGCCGGTTCGAAGCGGCTGTGGCACAAAAGACAACATGCTCTCTGAGCTCACCATAGCGACGCCGACGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:777:9384:9508/1
+ATCCGATAGGCTACCTATACTTATGAGGATCTCAAGTTATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:778:7646:7768/1
+GGGAGGAAGGTTTGGATTTCGTCGCAGAAAGTTGCCAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:779:3227:3352/1
+CATGAGTGTTCCTTTACCCATCCGTCAGCACACATGTGTCGTTAAATCACTCGGGTGTTGCTTCCTCTGTTACCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:780:5398:5523/1
+CTCCAGGGTTGCTGAACGACCACCGTCTAACTGACGTTCGCGTCGTCCGTGACAGATCGAAATCTAGCAGCCGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:781:7325:7446/1
+GTCCGTTGCTGGGGGGATTGCGTGACCATAACAATTAATTTCCTCGGGTTACAGTTTCATGGCTGCACTAGACTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:782:8948:9071/1
+TAGACCATGAGTGGCCGACTGCAGAATTTTTGACAAAAGTCTTCTTTACCAGAGATTGGCAGCCCGGCGTTGGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:783:1793:1917/1
+TGCAAGCACCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGTCGAAAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:784:330:453/1
+TGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:785:4789:4910/1
+ACGTGACATCCGATAGACTGATTTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGTATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:786:7654:7776/1
+GGTTTGGATTTCGTCGCAGAAAGTTGCCAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCGCAGATAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:787:2297:2420/1
+GGCCTGAGTACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTGATGTTTGCACTTCCGGGACATAGGTGCGTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:788:7137:7262/1
+TACTCAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACTACAAGAAGCTCATTCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:789:6415:6538/1
+GTGCTGGATTGTTCCGTTTATCTTTAGATGTATCGCAGCTGATCTTCAGCTCAGATGAACGCGCCCGGGCCACTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:790:6229:6353/1
+AGATGCGGGACCTCATCGGGCAGTTTCGACCCCGGAATGACCGGCGAACCTAGAAGAAACGGTATCAACTATCTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:791:1480:1604/1
+CGCCGCTCAAGAGCCTTCTGCACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:792:420:544/1
+TAGCAAGTGTTCAACCGACTCTTCCCGTTGGGGCTAGATTACATTCCGGGAGGTTCGACAAGGGCATCCTTGGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:793:621:744/1
+TCTACGCCCGTGGTGCTGAGCGCCTCCTAGTCTACGGCTAGGATCCTCCTCGAAACTTAGCATTGCAGGCACACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:794:712:834/1
+TCACGCGTCCCGCAAGTGCTACTCAGCTCTTGTGTTCCGGTAACAATACACATTGGACGTGCATGACTCTTCAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:795:3694:3819/1
+AGTTCAGGCATCTGTACTCTTTGCATTGGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCATTACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:796:511:636/1
+AAATTAGGTTGAGCGAAGTAATTATCGCGAGTGCCGATTAGAAGCCGATCTTGGGGATGACTGTACTAACGTCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:797:8411:8534/1
+GCCGTCATTATCCAGGGGCTTTAAACCATGTGTGGTAGTGTTGCCAAGTTAACTGCCCAGAGCATCCTAAGGCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:798:1438:1561/1
+ACGTTTTGCGAGCGGCATTCTACTCGTGATTATCCGACAGGTCGCCGCTCAAGAGCCTTCTGCACACGTTGGGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:799:2608:2732/1
+CGAGCGTTCCACAGCTCTCGCACTCATCCATTTGTACATTAGCCCAATGTCAGGCTTCCGATACCTTTGTTCCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:800:9202:9327/1
+CGTATAGGAGAATAGGTCTCTATTACTGAAATAATTGACCGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:801:3327:3450/1
+GTTCCCGCGACAATGGGTAAGGTCGAGAAGTTCTGCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:802:3858:3982/1
+ACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTAGACGCGTAACTTGACACTATCGTTTCAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:803:667:790/1
+TCCTCGAAACTTAGCATTGCAGGCACACTTGATGACACCTACGTATCACGCGTCCCGCAAGTGCTACTCAGCTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:804:3417:3540/1
+ACGAATTAGTATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGACTTCCGTCCTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:805:1593:1717/1
+CCCGAAAATGCACGTGGGGACACCTGACGGACCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:806:667:792/1
+TCCTCGAAACTTAGCATTGCAGGCACACTTGATGACACCTACGTATCACGCGTCCCGCAAGTGCTACTCAGCTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:807:6795:6917/1
+TAAGGTACGCTTGTGTCTCAACTCTGAGTGCGAACCGAGAGTAATGCGAACAACCGTACCATAAACATGGCCCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:808:4209:4331/1
+CGATATACGCCAGGTAATTCACGATTTGTCGCCCCATGCGTGAGGATTTTCGGCGGCAATTAGCAGTCTGTGGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:809:3622:3745/1
+CTAGATCATCTCTTACTGCTAACTCGCTCTCTCATAAAAGATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:810:5320:5444/1
+CGCGTGATAGCAAGTCACGAACCCCTCCTTCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:811:1127:1251/1
+ACTCTATGGATAAGACCTAGTCACGGCAGGTCCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:812:7028:7153/1
+GGAGGATTGCAACAGCATTAAGGAGTTTCTTTCCCCGGAACTTAGGGGCTCCTGAACATCTCGTCGGCAAGGCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:813:7423:7547/1
+TAAATGACAGTCTGCATTCTACTTAGCGCTTATGATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:814:6117:6240/1
+GAGACTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:815:4837:4960/1
+CGGTCGTATGTTTTAATCAGCCGTATCGTAATCTCTCATTCTTCTCGCACATGAGTACCATCATTCGGTTATTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:816:9464:9588/1
+GCCGCTTAATTCCGTTCATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:817:3596:3718/1
+TTTTCAGCCACCCGAATTACACCCTGCTAGATCATCTCTTACTGCTAACTCGCTCTCTCATAAAAGATCTATGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:818:5134:5257/1
+GTCCAGTGGTCCTTATCTCTTAACGAGAGACTCTGGTTGGGTCCTGATGAGGTACCCTCGCACAGATGCCTCTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:819:4823:4946/1
+ATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGTATCGTAATCTCTCATTCTTCTCGCACATGAGTACCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:820:3997:4123/1
+TGGGAGACAGCAGCTACTTCAGAGCGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:821:3001:3123/1
+AGAGTTATCGTTTGTCCCACGCGAGCTTCCTATGAGTCGTAAATATGTTGCAGTTCGTAGTGTTTTGGCTATGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:822:2888:3011/1
+CGGTCGTAATATAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGTCTTTGACGTGTTTGATTATCTCAGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:823:7583:7705/1
+AAAGAGCAACTATTACCATATCCAGACCGGCGTTCCCGCCGTCCGCGACATGCGAAGGGGCTTGGGAGGAAGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:824:4320:4442/1
+CCTCAAAATTAGGGGTATAGATAGAAGGCGATTGAACGGCTCTAGCGCACGTCTAACCCATACTTATGTGTGTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:825:5291:5414/1
+ACCGGCCGCGGAAACACAGTCTCTATGTACGCGTGATAGCAAGTCACGAACCCCTCCTTCAAACGACATGTCCAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:826:9046:9169/1
+GGCGCGAAGTATAGCTGTGGAGGGCACGTCCCGACATTCCTAGACGATCGTCATGGATTTTGAACGCACGCATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:827:4257:4382/1
+TTCGGCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTCCTCAAAATTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:828:9346:9469/1
+ATAACTTCGGCGTAACTGTGCCAACGCTTAGCCCCCCCATCCGATAGGCTACCTATACTTATGAGGATCTCAAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:829:9393:9518/1
+GCTACCTATACTTATGAGGATCTCAAGTTATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCACACGGGCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:830:9700:9825/1
+TGAGACTATTACTCTTAAGTTCTGTTAGGTTTCAGGATGATGCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:831:8271:8394/1
+TGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAGGCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:832:4210:4334/1
+GATATACGCCAGGTAATTCACGATTTGTCGCCCCATGCGTGAGGATTTTCGGCGGCAATTAGCAGTCTGTGGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:833:9275:9398/1
+TTCGCTTGGCATGCCTCGGGGGCTACACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:834:7457:7581/1
+ATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAAGGCGAAAGGCGGATAAAGGAGTTGAGGGTTACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:835:8571:8695/1
+AGCACGGTGGGGCCGATGCGCCACAAAATTAACGGTAGAGCATATTCTGCGACCTCCCCTAAACTGCTATACAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:836:46:170/1
+GGTCCGCCAGTCCACTTATCCCACCGCTAGCCTTCGCTTGTCACTTGGGCATTTGTCGCCCCTTTGGGCGCGGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:837:2291:2413/1
+GAGAACGGCCTGAGTACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTGATGTTTGCACTTCCGGGACATAGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:838:8536:8658/1
+ACGTATGGGTAGTGGAAGTTGCTACTATAATACACAGCACGGTGGGGCCGATGCGCCACAAAATTAACGGTAGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:839:7745:7869/1
+TATACCGGTTCATCCCATTAGATTCTTCGGAAATCGGGGCGCGACCGATGTAGAGCCGGTGTAATAGCACATCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:840:3760:3883/1
+AGCATTACCCCTGCTATCACCAGTGGGTGAAGGCGGCGGAATACGCCAAGTTTGTAACGTCACGGTCAGGATTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:841:4801:4925/1
+ATAGACTGATTTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGTATCGTAATCTCTCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:842:2931:3054/1
+CCTGGTCTTTGACGTGTTTGATTATCTCAGAACGAGCTACACAAGGCGGCCGCGGTGATCATAAATCCCAAGAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:843:5225:5351/1
+AGCAAGAGGCCAATTCTGGAAGTTTTGCTATTCGAAATCCTACAGGATAGAGGAACAAGCGCATGGACCGGCCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:844:1791:1916/1
+CTTGCAAGCACCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGTCGAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:845:742:865/1
+TGTGTTCCGGTAACAATACACATTGGACGTGCATGACTCTTCAATGCTCAACCGGCAGCGCCGAGCAGTTCGACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:846:9091:9215/1
+GATCGTCATGGATTTTGAACGCACGCATACGCTATCGAGTTCCGCAGAGTTCACTATATGGCACCTACGCTGAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:847:1501:1625/1
+ACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTACGCTACGCGCCTGTATATGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:848:6385:6510/1
+CGATGTTTGAGTAGGACCACCGAAATGAGGGTGCTGGATTGTTCCGTTTATCTTTAGATGTATCGCAGCTGATCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:849:4811:4935/1
+TTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGTATCGTAATCTCTCATTCTTCTCGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:850:7247:7370/1
+GCTAAATTGATGATGGACTAAAACATAGGCTTACGAGCACAAATCCTAGCATAAACATCTAGTCAAACGTCGCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:851:6449:6572/1
+GCAGCTGATCTTCAGCTCAGATGAACGCGCCCGGGCCACTACAACTGTCGGGGTGATTAGTATATAAAGGGCGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:852:8340:8462/1
+GGCGCGAATTACTATACGTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTGACTAGTGGGGGCTGTGTCGGGCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:853:1693:1816/1
+CAACGTCGCCGCCAGCAGATTGCCCCGTGGATCTGTCGGAAAGGCGATCAACAATACGGGCACACAGCCGCCGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:854:2298:2422/1
+GCCTGAGTACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTGATGTTTGCACTTCCGGGACATAGGTGCGTCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:855:9727:9851/1
+GGTTTCAGGATGATGCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGACGTCGGGCTCTCTTGATTTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:856:3208:3334/1
+CCTTAAAGGCACGCTATTGCATGAGTGTTCCTTTACCCATCCGTCAGCACACATGTGTCGTTAAATCACTCGGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:857:1523:1646/1
+AGGTCCCCGGCAAACCCAATGAGAAACCATGTACGCTACGCGCCTGTATATGTCATTTGCCGGGCCTCTCCCCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:858:5720:5844/1
+AAGTCAAAGCGAGAATCCTATTGTCTCATGCTTTTCCTGGTGTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:859:8384:8507/1
+TAGTGTGACTAGTGGGGGCTGTGTCGGGCCGTCATTATCCAGGGGCTTTAAACCATGTGTGGTAGTGTTGCCAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:860:1158:1281/1
+CCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATCTACACGGGTACTATGTACGAGAGTTGGTTGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:861:4156:4281/1
+TTATTTATATGCAGCAAAGCTAAGTAAGAGGCTGGAAGACGCCTTTAGGCGACCGATATACGCCAGGTAATTCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:862:4253:4377/1
+GATTTTCGGCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTCCTCAAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:863:6939:7061/1
+TAACGGGATGCGTCGCTGCGTCAGATGACGACGTCCGACTCTTACATGCATTCAATACGAAGAACTAGGACCCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:864:3446:3570/1
+AAAATGGCCCTCACAAGCCATCTTTAGGTGTCGACTTCCGTCCTGCATCAGGGTGAGGTACCATTTGAGGCTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:865:5673:5797/1
+CTCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTATTGTCTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:866:9568:9691/1
+GGGACGTAGAGAAGCTTGGTCGAAGTTATACGACGGCTTGTGTGGGTGAGATAACAGCAATAGCCCTGGCATGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:867:5954:6077/1
+CGGTTTGCTTGTTCCTTTCCGCCAACTGATCTGGGGTCCTTTGGGGCTATTGGCCGGTCCAGGTAGCCCCAGGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:868:9421:9545/1
+TATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCACACGGGCCGCTTAATTCCGTTCATAGTGTGAGATTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:869:313:436/1
+TCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:870:2876:3000/1
+TTTTTGCACTCCCGGTCGTAATATAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGTCTTTGACGTGTTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:871:5548:5671/1
+GCTGCTGAATACGTACGCCGTATATTTACAAAAACCGATAGTGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:872:1103:1226/1
+ACGAGCCAATGAAGAGACCACGTTACTCTATGGATAAGACCTAGTCACGGCAGGTCCCGGGGTGAAATCATGGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:873:235:359/1
+CGCATTCCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAAGTTCCGTTCTGTCCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:874:9116:9240/1
+CATACGCTATCGAGTTCCGCAGAGTTCACTATATGGCACCTACGCTGAGGGGCCGCGAGGTTCCGCTGCGCTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:875:9596:9722/1
+TACGACGGCTTGTGTGGGTGAGATAACAGCAATAGCCCTGGCATGGATCTGCCGTGGACCGCACCATCTGAGTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:876:102:225/1
+CGCCCCTTTGGGCGCGGTAGGAGGGGCTTTCGGGAAGGGGACACGCCCCCCACGTTGAACGACTGGCGTAATTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:877:2590:2714/1
+AAGTGCTTAGACCGTGTACGAGCGTTCCACAGCTCTCGCACTCATCCATTTGTACATTAGCCCAATGTCAGGCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:878:1942:2065/1
+CACTCCGCAAGTGGACGATAAGACTTACGTCAGCTACTCAATACAGACGCATGGTATATATCATCTCGGGTTCTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:879:47:172/1
+GTCCGCCAGTCCACTTATCCCACCGCTAGCCTTCGCTTGTCACTTGGGCATTTGTCGCCCCTTTGGGCGCGGTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:880:2415:2538/1
+CGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:881:7953:8076/1
+GCACGTAACACTTCCAATTATTGTGGAACAGATGACTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:882:1845:1969/1
+CGGTATGAAAACATGTCGAAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:883:2209:2333/1
+CTAGTAGCCCGTCGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCCAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:884:974:1098/1
+CTCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGGATGTGACTGTGTCGATGTGATTATCTCCATTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:885:2455:2577/1
+AAAGGTGCGTTCATTGTATATTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTACTTAACTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:886:9492:9618/1
+TTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTGTAGAACCCAACAAGCACTTTATCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:887:1052:1176/1
+ACGCATCTGGCAAAAGAGACCAAACCACCGGTCGGACGTCGATGGAAGCTCACGAGCCAATGAAGAGACCACGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:888:3733:3858/1
+AATTATTGCTAAGATCCCTTACGCTCAAGCATTACCCCTGCTATCACCAGTGGGTGAAGGCGGCGGAATACGCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:889:2481:2602/1
+TGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTACTTAACTTGCGCCATCCCCAAATGCTCTTACCATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:890:2550:2672/1
+ACCATAATAGCAAGCAGCCGAGCGCATGTGGGTCTGGCTGAAGTGCTTAGACCGTGTACGAGCGTTCCACAGCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:891:8791:8915/1
+CGCCCCCAGCGGTGGAATGTTAATCCATGACGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACTAATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:892:9533:9656/1
+TGAATTTGTAGAACCCAACAAGCACTTTATCAAGCGGGACGTAGAGAAGCTTGGTCGAAGTTATACGACGGCTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:893:8097:8222/1
+GTGTTCTTACGGGAATCTTAGAGGAGCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGCACAAAAGACAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:894:6162:6287/1
+ACGAATGGAGCAAGAGTCAGACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCGGCAGTGAGAGATGCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:895:5044:5168/1
+ACCGAAGACTGACGTATTCCGCTGACGAAGCGTATAGGTTCTACCCAGAAATCATTCCACTCCGCTCCCTGCGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:896:1555:1680/1
+ACGCTACGCGCCTGTATATGTCATTTGCCGGGCCTCTCCCCGAAAATGCACGTGGGGACACCTGACGGACCCGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:897:2216:2339/1
+CCCGTCGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCCAGGTAACAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:898:797:920/1
+CAGCGCCGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCTGCACTCGGGCACGAGGCGGGATGCCGTGAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:899:5961:6084/1
+CTTGTTCCTTTCCGCCAACTGATCTGGGGTCCTTTGGGGCTATTGGCCGGTCCAGGTAGCCCCAGGACCCAATGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:900:4875:4997/1
+TTCTTCTCGCACATGAGTACCATCATTCGGTTATTTGGGTACATGGGCGTATCCCACAAACGTTTTTCTTGTACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:901:6811:6933/1
+CTCAACTCTGAGTGCGAACCGAGAGTAATGCGAACAACCGTACCATAAACATGGCCCGTCAATTATATCGGTAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:902:4987:5110/1
+TTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAGTAAACCGAAGACTGACGTATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:903:1801:1925/1
+CCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGTCGAAAGGTAGTCCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:904:2841:2964/1
+ATTCACCCGATTCGGACGAGCCATCATATCTTTGTTTTTTGCACTCCCGGTCGTAATATAGTGCTTTCGATCTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:905:3718:3843/1
+ATTGGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCATTACCCCTGCTATCACCAGTGGGTGAAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:906:6195:6319/1
+TTCCGAGTGACACAACTAGTGTTGCGGCAGTGAGAGATGCGGGACCTCATCGGGCAGTTTCGACCCCGGAATGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:907:881:1003/1
+TCTGATAGTCAGCCCATTTTCTATACGCCGAGTGCATCAGACACTCTGAATCCTGTTTAGTGATACTTGTGCATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:908:7247:7372/1
+GCTAAATTGATGATGGACTAAAACATAGGCTTACGAGCACAAATCCTAGCATAAACATCTAGTCAAACGTCGCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:909:5849:5971/1
+AGCCGTCATTAATAAACTGTCTCACGGCGATGTAGAAGAAGATCCAACATTTGCGATCGAAGCCAACTCGAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:910:2963:3087/1
+CGAGCTACACAAGGCGGCCGCGGTGATCATAAATCCCAAGAGTTATCGTTTGTCCCACGCGAGCTTCCTATGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:911:6423:6546/1
+TTGTTCCGTTTATCTTTAGATGTATCGCAGCTGATCTTCAGCTCAGATGAACGCGCCCGGGCCACTACAACTGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:912:3860:3983/1
+GTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTAGACGCGTAACTTGACACTATCGTTTCAGTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:913:5461:5585/1
+CTAGCAGCCGCATATAAGTACGACTCTTAAAGCTATAACATTTGAACAGCGGAAGTTAGATGAGGGTCGATAAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:914:8315:8438/1
+CCGGCACGGATCGCTCCCTCGGGAAGGCGCGAATTACTATACGTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:915:2416:2540/1
+GTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:916:1883:2007/1
+CTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAACGTCAGAGATTTAGTCAACCGCACTCCGCAAGTGGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:917:596:720/1
+TTCGCTCAACCGCCACTTGGTCGTTTCTACGCCCGTGGTGCTGAGCGCCTCCTAGTCTACGGCTAGGATCCTCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:918:5411:5534/1
+GAACGACCACCGTCTAACTGACGTTCGCGTCGTCCGTGACAGATCGAAATCTAGCAGCCGCATATAAGTACGACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:919:1727:1850/1
+GTCGGAAAGGCGATCAACAATACGGGCACACAGCCGCCGTAGGTTTAAATTGCAAGGTGGTACACTTGCAAGCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:920:7436:7559/1
+GCATTCTACTTAGCGCTTATGATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAAGGCGAAAGGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:921:6510:6631/1
+ATATAAAGGGCGCCCCGGGCAACAATCTGTTAGGACGGTAAACCTATAGCCAAGAACACTAGCAGAGTTCGTATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:922:2356:2479/1
+GGACATAGGTGCGTCGGTGGACGATTTATTGAAAGGGAATCGACATCTTTCGCGCTCGACGTTAGAACGGGTATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:923:2622:2745/1
+CTCTCGCACTCATCCATTTGTACATTAGCCCAATGTCAGGCTTCCGATACCTTTGTTCCGTGTTGAGCCTGCCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:924:803:925/1
+CGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCTGCACTCGGGCACGAGGCGGGATGCCGTGAATAGCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:925:6271:6392/1
+GGCGAACCTAGAAGAAACGGTATCAACTATCTCGTATTTACAATTGATGAGCCACATGGGGGCCGGCATTGAAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:926:4015:4138/1
+TCAGAGCGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACACAAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:927:2209:2333.dup.2/1
+CTAGTAGCCCGTCGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCCAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:928:4954:5077/1
+TCTTTGCATCACGGACGTCGAATCGATTTTTGTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:929:431:555/1
+CAACCGACTCTTCCCGTTGGGGCTAGATTACATTCCGGGAGGTTCGACAAGGGCATCCTTGGCGTAAGAGGCCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:930:3416:3541/1
+CACGAATTAGTATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGACTTCCGTCCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:931:3703:3826/1
+ATCTGTACTCTTTGCATTGGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCATTACCCCTGCTATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:932:2414:2537/1
+ACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:933:5320:5443/1
+CGCGTGATAGCAAGTCACGAACCCCTCCTTCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:934:8084:8207/1
+AAGCGATATATGAGTGTTCTTACGGGAATCTTAGAGGAGCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:935:1797:1921/1
+AGCACCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGTCGAAAGGTAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:936:3673:3796/1
+ATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCATTGGGAGCGTGGCTAATTATTGCTAAGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:937:9481:9605/1
+ATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTGTAGAACCCAACAAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:938:415:538/1
+TCCACTAGCAAGTGTTCAACCGACTCTTCCCGTTGGGGCTAGATTACATTCCGGGAGGTTCGACAAGGGCATCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:939:6741:6865/1
+TCCACAACCGAGACACTTTTGAGTTCATATTAGCCGGCATGTTGGAGGCGGCCATAAGGTACGCTTGTGTCTCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:940:9091:9213/1
+GATCGTCATGGATTTTGAACGCACGCATACGCTATCGAGTTCCGCAGAGTTCACTATATGGCACCTACGCTGAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:941:975:1099/1
+TCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGGATGTGACTGTGTCGATGTGATTATCTCCATTCACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:942:2393:2517/1
+AATCGACATCTTTCGCGCTCGACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:943:4069:4191/1
+AATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGACTTGAAGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:944:2707:2831/1
+CGGGTGCAGAGACAGCTAACACACGATGCACTGTCACCGCTACTGTGATGAATGGACCTTCTACCGATCGGAGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:945:8809:8933/1
+GTTAATCCATGACGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACTAATACGATAGTATAGATCCTCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:946:5490:5614/1
+AAGCTATAACATTTGAACAGCGGAAGTTAGATGAGGGTCGATAAGTCTGCCTAGAGTGGCTGCTGAATACGTACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:947:2420:2544/1
+GAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTACAATTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:948:3719:3842/1
+TTGGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCATTACCCCTGCTATCACCAGTGGGTGAAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:949:1249:1372/1
+AGCAAGACCCTTTAAGCAAAATCTACACGCAGACCGCTATGGGATTTATGGCACAATGGGAATACCGCCCCCGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:950:5238:5362/1
+TTCTGGAAGTTTTGCTATTCGAAATCCTACAGGATAGAGGAACAAGCGCATGGACCGGCCGCGGAAACACAGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:951:168:293/1
+CGTAATTAGCACGCCCGTGGAGTGATATGGCTGTTCGGTAACACCGCTGGAATAAAACCACCCCCAGCGCATTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:952:2305:2429/1
+TACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTGATGTTTGCACTTCCGGGACATAGGTGCGTCGGTGGACGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:953:7399:7523/1
+CACGAATCACAATTACTGTAGTACTAAATGACAGTCTGCATTCTACTTAGCGCTTATGATCTCGCACCACTACAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:954:5564:5686/1
+GCCGTATATTTACAAAAACCGATAGTGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:955:4966:5088/1
+GGACGTCGAATCGATTTTTGTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:956:2123:2247/1
+AGGACAATTCATAGCCGGACATTATACCTCATGGACACGTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:957:7050:7175/1
+GAGTTTCTTTCCCCGGAACTTAGGGGCTCCTGAACATCTCGTCGGCAAGGCAGTAGTTGGTACTCGGTTGAGGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:958:9277:9401/1
+CGCTTGGCATGCCTCGGGGGCTACACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:959:6073:6196/1
+TCTATGGCCGCATGATCTTTGCGGCAAATAGGCTCTTCGTACCGGAGACTGGTTGAGACTATTGGGGGCAGCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:960:7438:7562/1
+ATTCTACTTAGCGCTTATGATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAAGGCGAAAGGCGGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:961:2865:2989/1
+CATATCTTTGTTTTTTGCACTCCCGGTCGTAATATAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGTCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:962:717:842/1
+CGTCCCGCAAGTGCTACTCAGCTCTTGTGTTCCGGTAACAATACACATTGGACGTGCATGACTCTTCAATGCTCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:963:9389:9513/1
+ATAGGCTACCTATACTTATGAGGATCTCAAGTTATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCACACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:964:1486:1610/1
+TCAAGAGCCTTCTGCACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTACGCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:965:242:365/1
+CTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAAGTTCCGTTCTGTCCAAGGCTCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:966:2861:2984/1
+CCATCATATCTTTGTTTTTTGCACTCCCGGTCGTAATATAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:967:8279:8402/1
+ACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAGGCGCGAATTACTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:968:8785:8907/1
+AACCAACGCCCCCAGCGGTGGAATGTTAATCCATGACGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:969:5622:5746/1
+GCTCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:970:6712:6834/1
+ATCATTGACACCGACTTCATAGCTCATTTTCCACAACCGAGACACTTTTGAGTTCATATTAGCCGGCATGTTGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:971:2093:2216/1
+CTGATGGTAAGGAGGACGGGCCTGCCGCTGAGGACAATTCATAGCCGGACATTATACCTCATGGACACGTGCCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:972:4089:4212/1
+ACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGACTTGAAGACTGTGAGCGGTTCCTTATTTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:973:2782:2907/1
+CTGGTTTTGGCTTTAATATGTGGAGATAATTGCAATAGAGCATGTATTTTATCACTCAAATTCACCCGATTCGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:974:3341:3465/1
+GGGTAAGGTCGAGAAGTTCTGCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGGAGCTGTCTTCACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:975:7962:8085/1
+ACTTCCAATTATTGTGGAACAGATGACTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCTCAAACACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:976:4310:4433/1
+TGAACTATCTCCTCAAAATTAGGGGTATAGATAGAAGGCGATTGAACGGCTCTAGCGCACGTCTAACCCATACTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:977:8781:8904/1
+TTTGAACCAACGCCCCCAGCGGTGGAATGTTAATCCATGACGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:978:5874:6000/1
+GGCGATGTAGAAGAAGATCCAACATTTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGAACCGAGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:979:4160:4281/1
+TTATATGCAGCAAAGCTAAGTAAGAGGCTGGAAGACGCCTTTAGGCGACCGATATACGCCAGGTAATTCACGATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:980:4871:4994/1
+CTCATTCTTCTCGCACATGAGTACCATCATTCGGTTATTTGGGTACATGGGCGTATCCCACAAACGTTTTTCTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:981:7256:7379/1
+ATGATGGACTAAAACATAGGCTTACGAGCACAAATCCTAGCATAAACATCTAGTCAAACGTCGCCCATCGTCCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:982:3253:3378/1
+AGCACACATGTGTCGTTAAATCACTCGGGTGTTGCTTCCTCTGTTACCCACCCGTCCCCTGGGATGCACCAGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:983:492:616/1
+GCGTAAGAGGCCGCGGCACAAATTAGGTTGAGCGAAGTAATTATCGCGAGTGCCGATTAGAAGCCGATCTTGGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:984:3870:3993/1
+GCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTAGACGCGTAACTTGACACTATCGTTTCAGTCATCCAAATTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:985:8907:9031/1
+CCCTCGGTCCGTGAGTTAATGCACCACTCGAGTATACAGCCTAGACCATGAGTGGCCGACTGCAGAATTTTTGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:986:1003:1125/1
+TGTTATGTGAGGATGTGACTGTGTCGATGTGATTATCTCCATTCACCAAACGCATCTGGCAAAAGAGACCAAACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:987:4877:5001/1
+CTTCTCGCACATGAGTACCATCATTCGGTTATTTGGGTACATGGGCGTATCCCACAAACGTTTTTCTTGTACGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:988:1480:1603/1
+CGCCGCTCAAGAGCCTTCTGCACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:989:2353:2477/1
+CCGGGACATAGGTGCGTCGGTGGACGATTTATTGAAAGGGAATCGACATCTTTCGCGCTCGACGTTAGAACGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:990:4799:4923/1
+CGATAGACTGATTTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGTATCGTAATCTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:991:3427:3550/1
+ATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGACTTCCGTCCTGCATCAGGGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:992:2450:2574/1
+AAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTACTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:993:5533:5655/1
+AGTCTGCCTAGAGTGGCTGCTGAATACGTACGCCGTATATTTACAAAAACCGATAGTGCCGTCACGGGAGGAGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:994:6536:6660/1
+CTGTTAGGACGGTAAACCTATAGCCAAGAACACTAGCAGAGTTCGTATGCTCCTGGGATAATAAGTTGCAACGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:995:8302:8425/1
+GTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAGGCGCGAATTACTATACGTCATGCCTCGAGTTCCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:996:1785:1908/1
+GGTACACTTGCAAGCACCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:997:1199:1322/1
+TCTACACGGGTACTATGTACGAGAGTTGGTTGCGGAAAGGAGAGTGCGGTAGCAAGACCCTTTAAGCAAAATCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:998:9469:9594/1
+TTAATTCCGTTCATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:999:2366:2489/1
+GCGTCGGTGGACGATTTATTGAAAGGGAATCGACATCTTTCGCGCTCGACGTTAGAACGGGTATTAACATTGCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1000:4251:4376/1
+AGGATTTTCGGCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTCCTCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1001:1707:1832/1
+GCAGATTGCCCCGTGGATCTGTCGGAAAGGCGATCAACAATACGGGCACACAGCCGCCGTAGGTTTAAATTGCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1002:2181:2304/1
+AGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGTCGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1003:9296:9419/1
+GCTACACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACTTCGGCGTAACTGTGCCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1004:1938:2060/1
+ACCGCACTCCGCAAGTGGACGATAAGACTTACGTCAGCTACTCAATACAGACGCATGGTATATATCATCTCGGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1005:7169:7293/1
+TAGTGCGTAGCCACACCGTAAGTACTACAAGAAGCTCATTCGTTGGAAAGAAAGCGGGTCTCGTCACAATCCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1006:2245:2370/1
+TTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCCAGGTAACAATGAGAACGGCCTGAGTACTAGATCCACCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1007:355:477/1
+ATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGCCATAACGGTCCACTAGCAAGTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1008:6834:6959/1
+AGTAATGCGAACAACCGTACCATAAACATGGCCCGTCAATTATATCGGTAAACCATCTCAGCAGCAGCTCTGCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1009:8856:8978/1
+AAACTAATACGATAGTATAGATCCTCCTGCTCTCTAGTATGTTGGCCGATCCCCTCGGTCCGTGAGTTAATGCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1010:8269:8393/1
+GCTGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAGGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1011:1855:1977/1
+ACATGTCGAAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAACGTCAGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1012:1533:1656/1
+CAAACCCAATGAGAAACCATGTACGCTACGCGCCTGTATATGTCATTTGCCGGGCCTCTCCCCGAAAATGCACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1013:6500:6623/1
+GGTGATTAGTATATAAAGGGCGCCCCGGGCAACAATCTGTTAGGACGGTAAACCTATAGCCAAGAACACTAGCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1014:6893:7019/1
+AGCAGCAGCTCTGCCCACCCTAATCCTTCTGAGTTCCCGATCTATGTAACGGGATGCGTCGCTGCGTCAGATGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1015:3361:3484/1
+GCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGGAGCTGTCTTCACGCACGAATTAGTATTTTCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1016:2457:2583/1
+AGGTGCGTTCATTGTATATTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTACTTAACTTGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1017:5193:5316/1
+GCACAGATGCCTCTACTGCTGGTTATTATAGGAGCAAGAGGCCAATTCTGGAAGTTTTGCTATTCGAAATCCTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1018:2120:2243/1
+CTGAGGACAATTCATAGCCGGACATTATACCTCATGGACACGTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1019:4506:4630/1
+ATTTGTGTGAACGCACGCGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGTATGTTTAGGTGGCATATTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1020:2760:2883/1
+GGACCTTCTACCGATCGGAGCCCTGGTTTTGGCTTTAATATGTGGAGATAATTGCAATAGAGCATGTATTTTATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1021:1156:1279/1
+GTCCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATCTACACGGGTACTATGTACGAGAGTTGGTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1022:5625:5747/1
+CGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1023:3974:4098/1
+GGGCGCCATATAAACGCTACACGTGGGAGACAGCAGCTACTTCAGAGCGTTTAGCGGGGGCACTATTCAAAAGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1024:7400:7523/1
+ACGAATCACAATTACTGTAGTACTAAATGACAGTCTGCATTCTACTTAGCGCTTATGATCTCGCACCACTACAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1025:2030:2154/1
+AACTTTCCAAGACCCCGGATCGCGCGGCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGTAAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1026:4502:4627/1
+CCTAATTTGTGTGAACGCACGCGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGTATGTTTAGGTGGCATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1027:7657:7780/1
+TTGGATTTCGTCGCAGAAAGTTGCCAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCGCAGATAAGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1028:8111:8235/1
+ATCTTAGAGGAGCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGCACAAAAGACAACATGCTCTCTGAGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1029:9055:9178/1
+TATAGCTGTGGAGGGCACGTCCCGACATTCCTAGACGATCGTCATGGATTTTGAACGCACGCATACGCTATCGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1030:7634:7758/1
+GCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGCAGAAAGTTGCCAGATGAAAAGTCACACGGATTTAACTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1031:6926:7051/1
+TTCCCGATCTATGTAACGGGATGCGTCGCTGCGTCAGATGACGACGTCCGACTCTTACATGCATTCAATACGAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1032:6083:6206/1
+CATGATCTTTGCGGCAAATAGGCTCTTCGTACCGGAGACTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1033:8717:8842/1
+CGGAGTAATTGGATCGATTTTACGACCCAAGGTTACAACCGCCTAAGAGAAGACGCACTGGATATTTGAACCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1034:5729:5851/1
+CGAGAATCCTATTGTCTCATGCTTTTCCTGGTGTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTCTTGGCTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1035:7674:7798/1
+AAGTTGCCAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCGCAGATAAGGGCATGAACGGGTTTTATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1036:8356:8479/1
+CGTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTGACTAGTGGGGGCTGTGTCGGGCCGTCATTATCCAGGGGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1037:7220:7344/1
+AAGCGGGTCTCGTCACAATCCTATGTAGCTAAATTGATGATGGACTAAAACATAGGCTTACGAGCACAAATCCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1038:3427:3549/1
+ATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGACTTCCGTCCTGCATCAGGGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1039:7985:8107/1
+TGACTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCTCAAACACCGCAATTATAAAAAACTCATGGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1040:5909:6032/1
+AGCCAACTCGAACTCCTACGCCAGTGGGGTGAACCGAGCGAGAGTCGGTTTGCTTGTTCCTTTCCGCCAACTGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1041:9741:9865/1
+GCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGACGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1042:2165:2290/1
+CTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGTCGCATCATTGCGGGGTACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1043:5330:5454/1
+CAAGTCACGAACCCCTCCTTCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAGTGCTCCAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1044:1454:1579/1
+ATTCTACTCGTGATTATCCGACAGGTCGCCGCTCAAGAGCCTTCTGCACACGTTGGGGCTCCACGCGTAAGGTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1045:5865:5990/1
+CTGTCTCACGGCGATGTAGAAGAAGATCCAACATTTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1046:7489:7613/1
+TCGATGGGAAGGCGAAAGGCGGATAAAGGAGTTGAGGGTTACATACCATAACAACGGAGTCACAAAGGACATAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1047:6920:7044/1
+TCTGAGTTCCCGATCTATGTAACGGGATGCGTCGCTGCGTCAGATGACGACGTCCGACTCTTACATGCATTCAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1048:2839:2962/1
+AAATTCACCCGATTCGGACGAGCCATCATATCTTTGTTTTTTGCACTCCCGGTCGTAATATAGTGCTTTCGATCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1049:2218:2341/1
+CGTCGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCCAGGTAACAATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1050:2936:3060/1
+TCTTTGACGTGTTTGATTATCTCAGAACGAGCTACACAAGGCGGCCGCGGTGATCATAAATCCCAAGAGTTATCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1051:5899:6023/1
+TTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGAACCGAGCGAGAGTCGGTTTGCTTGTTCCTTTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1052:4218:4340/1
+CCAGGTAATTCACGATTTGTCGCCCCATGCGTGAGGATTTTCGGCGGCAATTAGCAGTCTGTGGTAACGATAGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1053:6126:6251/1
+TGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTAGGCCTTTCCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1054:6114:6236/1
+CCGGAGACTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1055:2172:2297/1
+ACCCAAAGCAGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGTCGCATCATTGCGGGGTACGGAGTCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1056:9458:9581/1
+ACACGGGCCGCTTAATTCCGTTCATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1057:5658:5781/1
+ATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGTCAAAGCGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1058:3379:3503/1
+TACATGTCTGTCGATGTCAATTGGAGCTGTCTTCACGCACGAATTAGTATTTTCTGTTATTAACTGAAAAATGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1059:5362:5485/1
+CCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAGTGCTCCAGGGTTGCTGAACGACCACCGTCTAACTGACGTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1060:9145:9269/1
+TATATGGCACCTACGCTGAGGGGCCGCGAGGTTCCGCTGCGCTCATGACTACACTTCCGTATAGGAGAATAGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1061:8962:9085/1
+CCGACTGCAGAATTTTTGACAAAAGTCTTCTTTACCAGAGATTGGCAGCCCGGCGTTGGTCATGGTGCTGTTACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1062:1464:1587/1
+TGATTATCCGACAGGTCGCCGCTCAAGAGCCTTCTGCACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1063:371:495/1
+CTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGCCATAACGGTCCACTAGCAAGTGTTCAACCGACTCTTCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1064:9276:9399/1
+TCGCTTGGCATGCCTCGGGGGCTACACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1065:1983:2105/1
+TACAGACGCATGGTATATATCATCTCGGGTTCTCGTCGTGCCTGGGTAACTTTCCAAGACCCCGGATCGCGCGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1066:1548:1672/1
+ACCATGTACGCTACGCGCCTGTATATGTCATTTGCCGGGCCTCTCCCCGAAAATGCACGTGGGGACACCTGACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1067:9202:9324/1
+CGTATAGGAGAATAGGTCTCTATTACTGAAATAATTGACCGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1068:7510:7634/1
+GATAAAGGAGTTGAGGGTTACATACCATAACAACGGAGTCACAAAGGACATAGGGTTTCACAGAATACCGGACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1069:8347:8472/1
+ATTACTATACGTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTGACTAGTGGGGGCTGTGTCGGGCCGTCATTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1070:3933:4057/1
+CATCCAAATTGGAGGCAACAACATCACTATCGAGATTTCTCGGGCGCCATATAAACGCTACACGTGGGAGACAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1071:2587:2711/1
+CTGAAGTGCTTAGACCGTGTACGAGCGTTCCACAGCTCTCGCACTCATCCATTTGTACATTAGCCCAATGTCAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1072:7780:7903/1
+GGGGCGCGACCGATGTAGAGCCGGTGTAATAGCACATCCATCCGCAAGGCGCACCGCAACGTGATGAACCCCTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1073:6992:7116/1
+AATACGAAGAACTAGGACCCCCCATCGTGCCTATTAGGAGGATTGCAACAGCATTAAGGAGTTTCTTTCCCCGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1074:6667:6790/1
+TTGTACAAAAGACTGCGTACAGATAAGGAACTGTTGCCGTGATTCATCATTGACACCGACTTCATAGCTCATTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1075:2413:2536/1
+GACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1076:4985:5108/1
+GTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAGTAAACCGAAGACTGACGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1077:8357:8480/1
+GTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTGACTAGTGGGGGCTGTGTCGGGCCGTCATTATCCAGGGGCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1078:6607:6732/1
+CGTTCCAGCCTTACCTATAGATGCTCGTCATAGTCGATTTCTTGTTTTCTCAGACATGTATTGTACAAAAGACTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1079:7988:8111/1
+CTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCTCAAACACCGCAATTATAAAAAACTCATGGTGTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1080:1796:1920/1
+AAGCACCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGTCGAAAGGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1081:9713:9837/1
+CTTAAGTTCTGTTAGGTTTCAGGATGATGCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGACGTCGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1082:6173:6297/1
+AAGAGTCAGACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCGGCAGTGAGAGATGCGGGACCTCATCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1083:9367:9491/1
+CAACGCTTAGCCCCCCCATCCGATAGGCTACCTATACTTATGAGGATCTCAAGTTATGCTGAACAGACCCGATTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1084:2124:2245/1
+GGACAATTCATAGCCGGACATTATACCTCATGGACACGTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1085:98:222/1
+TTGTCGCCCCTTTGGGCGCGGTAGGAGGGGCTTTCGGGAAGGGGACACGCCCCCCACGTTGAACGACTGGCGTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1086:4042:4165/1
+AAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1087:1759:1882/1
+GCCGCCGTAGGTTTAAATTGCAAGGTGGTACACTTGCAAGCACCATTTATACCAATGTTATTACCACGATCACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1088:5644:5767/1
+CGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1089:3270:3394/1
+AAATCACTCGGGTGTTGCTTCCTCTGTTACCCACCCGTCCCCTGGGATGCACCAGATGTTCCCGCGACAATGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1090:3959:4083/1
+CTATCGAGATTTCTCGGGCGCCATATAAACGCTACACGTGGGAGACAGCAGCTACTTCAGAGCGTTTAGCGGGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1091:2221:2343/1
+CGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCCAGGTAACAATGAGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1092:3203:3326/1
+TGCGACCTTAAAGGCACGCTATTGCATGAGTGTTCCTTTACCCATCCGTCAGCACACATGTGTCGTTAAATCACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1093:8226:8349/1
+TCTCGTGAGGACCGTCTTCCCTGAGCGATATTTTTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGTAGCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1094:8245:8371/1
+CCTGAGCGATATTTTTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1095:5648:5772/1
+CGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1096:6960:7083/1
+CAGATGACGACGTCCGACTCTTACATGCATTCAATACGAAGAACTAGGACCCCCCATCGTGCCTATTAGGAGGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1097:3855:3979/1
+GATACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTAGACGCGTAACTTGACACTATCGTTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1098:9762:9887/1
+TGTGCTTAGCGTGAAATGACGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCGAACCGTAGATTTAGAACTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1099:8061:8182/1
+TCTAAATCCATGTGTCATAATGAAAGCGATATATGAGTGTTCTTACGGGAATCTTAGAGGAGCACCATCTGGAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1100:6015:6136/1
+GGTAGCCCCAGGACCCAATGCGTGAGTTCTATTATAAGGTGTCGCCAAGAGGTTGCAATCTATGGCCGCATGATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1101:9134:9260/1
+GCAGAGTTCACTATATGGCACCTACGCTGAGGGGCCGCGAGGTTCCGCTGCGCTCATGACTACACTTCCGTATAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1102:3845:3969/1
+AATTTGTAGAGATACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTAGACGCGTAACTTGACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1103:3920:4045/1
+CTATCGTTTCAGTCATCCAAATTGGAGGCAACAACATCACTATCGAGATTTCTCGGGCGCCATATAAACGCTACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1104:581:704/1
+GTCTGTCGGATAGTGTTCGCTCAACCGCCACTTGGTCGTTTCTACGCCCGTGGTGCTGAGCGCCTCCTAGTCTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1105:7944:8068/1
+TATGCACCCGCACGTAACACTTCCAATTATTGTGGAACAGATGACTACTCCGAGATTCAGAAGGTTAGGAATGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1106:6510:6634/1
+ATATAAAGGGCGCCCCGGGCAACAATCTGTTAGGACGGTAAACCTATAGCCAAGAACACTAGCAGAGTTCGTATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1107:4974:5096/1
+AATCGATTTTTGTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAGTAAACCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1108:7290:7412/1
+TCCTAGCATAAACATCTAGTCAAACGTCGCCCATCGTCCGTTGCTGGGGGGATTGCGTGACCATAACAATTAATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1109:6249:6372/1
+CAGTTTCGACCCCGGAATGACCGGCGAACCTAGAAGAAACGGTATCAACTATCTCGTATTTACAATTGATGAGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1110:1958:2079/1
+GATAAGACTTACGTCAGCTACTCAATACAGACGCATGGTATATATCATCTCGGGTTCTCGTCGTGCCTGGGTAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1111:486:609/1
+TCCTTGGCGTAAGAGGCCGCGGCACAAATTAGGTTGAGCGAAGTAATTATCGCGAGTGCCGATTAGAAGCCGATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1112:8944:9068/1
+AGCCTAGACCATGAGTGGCCGACTGCAGAATTTTTGACAAAAGTCTTCTTTACCAGAGATTGGCAGCCCGGCGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1113:233:357/1
+AGCGCATTCCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAAGTTCCGTTCTGTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1114:787:911/1
+GCTCAACCGGCAGCGCCGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCTGCACTCGGGCACGAGGCGGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1115:3189:3313/1
+GACTATAGTATACGTGCGACCTTAAAGGCACGCTATTGCATGAGTGTTCCTTTACCCATCCGTCAGCACACATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1116:2648:2770/1
+AGCCCAATGTCAGGCTTCCGATACCTTTGTTCCGTGTTGAGCCTGCCTACTAATGTAACCGGGTGCAGAGACAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1117:3960:4083/1
+TATCGAGATTTCTCGGGCGCCATATAAACGCTACACGTGGGAGACAGCAGCTACTTCAGAGCGTTTAGCGGGGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1118:4759:4884/1
+TAGCCGAATTAGCGTTACACAAAGCAAGAGACGTGACATCCGATAGACTGATTTACTTCTGAAAATTACCGAGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1119:5605:5727/1
+GAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1120:6810:6935/1
+TCTCAACTCTGAGTGCGAACCGAGAGTAATGCGAACAACCGTACCATAAACATGGCCCGTCAATTATATCGGTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1121:7096:7218/1
+AAGGCAGTAGTTGGTACTCGGTTGAGGTGGCCGCTCAGTCCTACTCAATTTGAATGCTAGTTCTATGAATAATTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1122:2005:2128/1
+TCTCGGGTTCTCGTCGTGCCTGGGTAACTTTCCAAGACCCCGGATCGCGCGGCATGTAAGCGCATATGATCTCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1123:6798:6920/1
+GGTACGCTTGTGTCTCAACTCTGAGTGCGAACCGAGAGTAATGCGAACAACCGTACCATAAACATGGCCCGTCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1124:5682:5806/1
+ACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTATTGTCTCATGCTTTTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1125:1807:1930/1
+ATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGTCGAAAGGTAGTCCGCTCGCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1126:939:1061/1
+AGTGATACTTGTGCATGAGGCCTGATTAAGGATACCTCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1127:1401:1526/1
+CATCGTCTCGAACTAAGACAAGGGGTTATGTAAATAAACGTTTTGCGAGCGGCATTCTACTCGTGATTATCCGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1128:8844:8968/1
+TTCATTGAAAAAAAACTAATACGATAGTATAGATCCTCCTGCTCTCTAGTATGTTGGCCGATCCCCTCGGTCCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1129:5624:5749/1
+TCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1130:1709:1833/1
+AGATTGCCCCGTGGATCTGTCGGAAAGGCGATCAACAATACGGGCACACAGCCGCCGTAGGTTTAAATTGCAAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1131:5063:5187/1
+CGCTGACGAAGCGTATAGGTTCTACCCAGAAATCATTCCACTCCGCTCCCTGCGAGTCAACGCCAGAACTTGTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1132:5134:5257.dup.2/1
+GTCCAGTGGTCCTTATCTCTTAACGAGAGACTCTGGTTGGGTCCTGATGAGGTACCCTCGCACAGATGCCTCTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1133:3498:3621/1
+GTGAGGTACCATTTGAGGCTTAGGTAAAGACAGCAAGCACAGTCCCGACCCTGGATTCGTGAGGTATAGAGTACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1134:8584:8708/1
+CGATGCGCCACAAAATTAACGGTAGAGCATATTCTGCGACCTCCCCTAAACTGCTATACAGTTGTCAATGACAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1135:2154:2276/1
+TGGACACGTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGTCGCATCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1136:7199:7326/1
+GAAGCTCATTCGTTGGAAAGAAAGCGGGTCTCGTCACAATCCTATGTAGCTAAATTGATGATGGACTAAAACATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1137:6145:6268/1
+GATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1138:2863:2987/1
+ATCATATCTTTGTTTTTTGCACTCCCGGTCGTAATATAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1139:4172:4295/1
+AAGCTAAGTAAGAGGCTGGAAGACGCCTTTAGGCGACCGATATACGCCAGGTAATTCACGATTTGTCGCCCCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1140:8259:8384/1
+TTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1141:5606:5731/1
+AATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1142:478:602/1
+CAAGGGCATCCTTGGCGTAAGAGGCCGCGGCACAAATTAGGTTGAGCGAAGTAATTATCGCGAGTGCCGATTAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1143:1850:1974/1
+TGAAAACATGTCGAAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAACGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1144:3643:3767/1
+ACTCGCTCTCTCATAAAAGATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1145:5003:5126/1
+CCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAGTAAACCGAAGACTGACGTATTCCGCTGACGAAGCGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1146:3643:3766/1
+ACTCGCTCTCTCATAAAAGATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1147:1001:1125/1
+TTTGTTATGTGAGGATGTGACTGTGTCGATGTGATTATCTCCATTCACCAAACGCATCTGGCAAAAGAGACCAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1148:1059:1184/1
+TGGCAAAAGAGACCAAACCACCGGTCGGACGTCGATGGAAGCTCACGAGCCAATGAAGAGACCACGTTACTCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1149:9220:9345/1
+TCTATTACTGAAATAATTGACCGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTCGCTTGGCATGCCTCGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1150:295:418/1
+TTCCGTTCTGTCCAAGGCTCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1151:4021:4145/1
+CGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACACAAAACCACTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1152:6998:7123/1
+AAGAACTAGGACCCCCCATCGTGCCTATTAGGAGGATTGCAACAGCATTAAGGAGTTTCTTTCCCCGGAACTTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1153:43:166/1
+TCTGGTCCGCCAGTCCACTTATCCCACCGCTAGCCTTCGCTTGTCACTTGGGCATTTGTCGCCCCTTTGGGCGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1154:8637:8759/1
+CTATACAGTTGTCAATGACAATACGAGCCACCTCATCTGACGCCCGGAGTGAACCGCAGGAATAGCTGATGGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1155:2423:2547/1
+CGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTACCTGGGTTTACAATTCACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1156:2069:2192/1
+TATGATCTCGGCGTTAAGACGGAGCTGATGGTAAGGAGGACGGGCCTGCCGCTGAGGACAATTCATAGCCGGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1157:936:1058/1
+TTTAGTGATACTTGTGCATGAGGCCTGATTAAGGATACCTCAACCACACATTCTTGCTAGACGCATTTGTTATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1158:7600:7724/1
+ATATCCAGACCGGCGTTCCCGCCGTCCGCGACATGCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGCAGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1159:5671:5795/1
+GCCTCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTATTGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1160:6577:6701/1
+TTCGTATGCTCCTGGGATAATAAGTTGCAACGTTCCAGCCTTACCTATAGATGCTCGTCATAGTCGATTTCTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1161:1898:2021/1
+AATTCTACGCGCGCGCCCAGTAACGTCAGAGATTTAGTCAACCGCACTCCGCAAGTGGACGATAAGACTTACGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1162:5349:5473/1
+TCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAGTGCTCCAGGGTTGCTGAACGACCACCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1163:8181:8306/1
+GAGCTCACCATAGCGACGCCGACGCAAATCATCAACCTAGGCCACTCTCGTGAGGACCGTCTTCCCTGAGCGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1164:8951:9074/1
+ACCATGAGTGGCCGACTGCAGAATTTTTGACAAAAGTCTTCTTTACCAGAGATTGGCAGCCCGGCGTTGGTCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1165:2179:2302/1
+GCAGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGTCGCATCATTGCGGGGTACGGAGTCTTTTCAGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1166:4034:4156/1
+CACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1167:8740:8863/1
+GACCCAAGGTTACAACCGCCTAAGAGAAGACGCACTGGATATTTGAACCAACGCCCCCAGCGGTGGAATGTTAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1168:4457:4580/1
+GAAGCTGTTGCGGTTTTTAGCTTAGCCCGCGAGAATCTCGGAGTACCTAATTTGTGTGAACGCACGCGCGGTGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1169:6422:6546/1
+ATTGTTCCGTTTATCTTTAGATGTATCGCAGCTGATCTTCAGCTCAGATGAACGCGCCCGGGCCACTACAACTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1170:1897:2020/1
+CAATTCTACGCGCGCGCCCAGTAACGTCAGAGATTTAGTCAACCGCACTCCGCAAGTGGACGATAAGACTTACGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1171:2050:2173/1
+CGCGCGGCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGTAAGGAGGACGGGCCTGCCGCTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1172:8531:8654.dup.2/1
+CACTCACGTATGGGTAGTGGAAGTTGCTACTATAATACACAGCACGGTGGGGCCGATGCGCCACAAAATTAACGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1173:4249:4372/1
+TGAGGATTTTCGGCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTCCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1174:324:447/1
+TTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1175:431:555.dup.2/1
+CAACCGACTCTTCCCGTTGGGGCTAGATTACATTCCGGGAGGTTCGACAAGGGCATCCTTGGCGTAAGAGGCCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1176:1702:1827/1
+CGCCAGCAGATTGCCCCGTGGATCTGTCGGAAAGGCGATCAACAATACGGGCACACAGCCGCCGTAGGTTTAAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1177:7129:7253/1
+CTCAGTCCTACTCAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACTACAAGAAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1178:8621:8745/1
+GACCTCCCCTAAACTGCTATACAGTTGTCAATGACAATACGAGCCACCTCATCTGACGCCCGGAGTGAACCGCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1179:5730:5854/1
+GAGAATCCTATTGTCTCATGCTTTTCCTGGTGTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTCTTGGCTCACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1180:6481:6604/1
+GGGCCACTACAACTGTCGGGGTGATTAGTATATAAAGGGCGCCCCGGGCAACAATCTGTTAGGACGGTAAACCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1181:8420:8545/1
+ATCCAGGGGCTTTAAACCATGTGTGGTAGTGTTGCCAAGTTAACTGCCCAGAGCATCCTAAGGCTCATTGGAGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1182:3828:3952/1
+GGATTATTACGCTCCGAAATTTGTAGAGATACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1183:4347:4470/1
+GCGATTGAACGGCTCTAGCGCACGTCTAACCCATACTTATGTGTGTATCTTAAGGTTTCTACTAACAATAAGGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1184:3012:3136/1
+TTGTCCCACGCGAGCTTCCTATGAGTCGTAAATATGTTGCAGTTCGTAGTGTTTTGGCTATGCAATGTTCGAATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1185:8843:8965/1
+TTTCATTGAAAAAAAACTAATACGATAGTATAGATCCTCCTGCTCTCTAGTATGTTGGCCGATCCCCTCGGTCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1186:331:455/1
+GCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1187:5237:5361/1
+ATTCTGGAAGTTTTGCTATTCGAAATCCTACAGGATAGAGGAACAAGCGCATGGACCGGCCGCGGAAACACAGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1188:5821:5944/1
+AACTCTTAAACAAGCTAGCAAGCTAATTAGCCGTCATTAATAAACTGTCTCACGGCGATGTAGAAGAAGATCCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1189:871:997/1
+TAGCTGTTTGTCTGATAGTCAGCCCATTTTCTATACGCCGAGTGCATCAGACACTCTGAATCCTGTTTAGTGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1190:2533:2658/1
+CATCCCCAAATGCTCTTACCATAATAGCAAGCAGCCGAGCGCATGTGGGTCTGGCTGAAGTGCTTAGACCGTGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1191:300:424/1
+TTCTGTCCAAGGCTCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1192:6822:6945/1
+GTGCGAACCGAGAGTAATGCGAACAACCGTACCATAAACATGGCCCGTCAATTATATCGGTAAACCATCTCAGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1193:1528:1651/1
+CCCGGCAAACCCAATGAGAAACCATGTACGCTACGCGCCTGTATATGTCATTTGCCGGGCCTCTCCCCGAAAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1194:114:238/1
+CGCGGTAGGAGGGGCTTTCGGGAAGGGGACACGCCCCCCACGTTGAACGACTGGCGTAATTAGCACGCCCGTGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1195:7119:7242/1
+GAGGTGGCCGCTCAGTCCTACTCAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1196:2990:3114/1
+CATAAATCCCAAGAGTTATCGTTTGTCCCACGCGAGCTTCCTATGAGTCGTAAATATGTTGCAGTTCGTAGTGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1197:2272:2395/1
+CATAATGCCAGGTAACAATGAGAACGGCCTGAGTACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTGATGTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1198:194:316/1
+ATGGCTGTTCGGTAACACCGCTGGAATAAAACCACCCCCAGCGCATTCCTTCCGGCCTTTTCCGACTCACCAAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1199:5914:6039/1
+ACTCGAACTCCTACGCCAGTGGGGTGAACCGAGCGAGAGTCGGTTTGCTTGTTCCTTTCCGCCAACTGATCTGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1200:3049:3172/1
+TGCAGTTCGTAGTGTTTTGGCTATGCAATGTTCGAATCGTTGTCAGGGACGTAGCATACACACCGGGGCGTCCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1201:4397:4521/1
+TAAGGTTTCTACTAACAATAAGGGCATGGATGGAAGCGCGAGAATTAAGGAGATAGCATCGAAGCTGTTGCGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1202:1617:1741/1
+TGACGGACCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAATTAAGCGTACAACCATCTAGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1203:291:414/1
+GAAGTTCCGTTCTGTCCAAGGCTCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1204:3000:3124/1
+AAGAGTTATCGTTTGTCCCACGCGAGCTTCCTATGAGTCGTAAATATGTTGCAGTTCGTAGTGTTTTGGCTATGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1205:328:453/1
+GTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1206:8599:8720/1
+TTAACGGTAGAGCATATTCTGCGACCTCCCCTAAACTGCTATACAGTTGTCAATGACAATACGAGCCACCTCATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1207:4606:4732/1
+GGCCCTGTCCTAAGTCCATGCTTTCGCATGTGTGAAGCGTGCATTTATCCTACCCCGTGTTAGGGCTCTTTCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1208:8999:9124/1
+GAGATTGGCAGCCCGGCGTTGGTCATGGTGCTGTTACCAGTCGGGTGGGCGCGAAGTATAGCTGTGGAGGGCACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1209:7533:7657/1
+ACCATAACAACGGAGTCACAAAGGACATAGGGTTTCACAGAATACCGGACAAAGAGCAACTATTACCATATCCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1210:4068:4192/1
+CAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGACTTGAAGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1211:7345:7467/1
+CGTGACCATAACAATTAATTTCCTCGGGTTACAGTTTCATGGCTGCACTAGACTCACGAATCACAATTACTGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1212:8043:8168/1
+ATAAAAAACTCATGGTGTTCTAAATCCATGTGTCATAATGAAAGCGATATATGAGTGTTCTTACGGGAATCTTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1213:2801:2925/1
+GTGGAGATAATTGCAATAGAGCATGTATTTTATCACTCAAATTCACCCGATTCGGACGAGCCATCATATCTTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1214:5751:5875/1
+TTTTCCTGGTGTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTCTTGGCTCACAGGTAGCTGCTGCCCGAACTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1215:1346:1470/1
+TTGTTTGTGTGGACAGATAAGTCATATATGATTCGGGCATCGGTGAATACGGTTTCATCGTCTCGAACTAAGACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1216:5674:5799/1
+TCGTAACAACAACATTATCGTGCCAGTTAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTATTGTCTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1217:6879:7002/1
+CGGTAAACCATCTCAGCAGCAGCTCTGCCCACCCTAATCCTTCTGAGTTCCCGATCTATGTAACGGGATGCGTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1218:1864:1988/1
+AAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAACGTCAGAGATTTAGTCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1219:2475:2597/1
+TTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTACTTAACTTGCGCCATCCCCAAATGCTCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1220:6867:6989/1
+CGTCAATTATATCGGTAAACCATCTCAGCAGCAGCTCTGCCCACCCTAATCCTTCTGAGTTCCCGATCTATGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1221:7711:7835/1
+GCTCCCACGCGCAGATAAGGGCATGAACGGGTTTTATACCGGTTCATCCCATTAGATTCTTCGGAAATCGGGGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1222:5498:5620/1
+ACATTTGAACAGCGGAAGTTAGATGAGGGTCGATAAGTCTGCCTAGAGTGGCTGCTGAATACGTACGCCGTATATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1223:4646:4770/1
+GCATTTATCCTACCCCGTGTTAGGGCTCTTTCTATATCGCGGCCCCGAGTCTTTACACATACAGCAGCACTACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1224:7553:7677/1
+AAGGACATAGGGTTTCACAGAATACCGGACAAAGAGCAACTATTACCATATCCAGACCGGCGTTCCCGCCGTCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1225:3331:3456/1
+CCGCGACAATGGGTAAGGTCGAGAAGTTCTGCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGGAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1226:2060:2183/1
+GTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGTAAGGAGGACGGGCCTGCCGCTGAGGACAATTCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1227:3150:3277/1
+AACGCAAGTGTATGTACTCTTGACTACATTATTGCCAAAGACTATAGTATACGTGCGACCTTAAAGGCACGCTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1228:322:446/1
+TTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1229:4903:5026/1
+GGTTATTTGGGTACATGGGCGTATCCCACAAACGTTTTTCTTGTACGGAGATCTTTGCATCACGGACGTCGAATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1230:8163:8286/1
+AAAGACAACATGCTCTCTGAGCTCACCATAGCGACGCCGACGCAAATCATCAACCTAGGCCACTCTCGTGAGGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1231:1220:1343/1
+AGAGTTGGTTGCGGAAAGGAGAGTGCGGTAGCAAGACCCTTTAAGCAAAATCTACACGCAGACCGCTATGGGATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1232:1318:1443/1
+CCCGGAATAAGGCCTCTATATAAAGAGGTTGTTTGTGTGGACAGATAAGTCATATATGATTCGGGCATCGGTGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1233:683:809/1
+TTGCAGGCACACTTGATGACACCTACGTATCACGCGTCCCGCAAGTGCTACTCAGCTCTTGTGTTCCGGTAACAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1234:2600:2723/1
+ACCGTGTACGAGCGTTCCACAGCTCTCGCACTCATCCATTTGTACATTAGCCCAATGTCAGGCTTCCGATACCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1235:7499:7622/1
+GGCGAAAGGCGGATAAAGGAGTTGAGGGTTACATACCATAACAACGGAGTCACAAAGGACATAGGGTTTCACAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1236:9746:9869/1
+AGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGACGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCGAACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1237:7904:8027/1
+GGAATTGATCACGATCGGCTCTGTATCGATATATTATCCGTATGCACCCGCACGTAACACTTCCAATTATTGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1238:4298:4422/1
+AGAGTAAGTGTTTGAACTATCTCCTCAAAATTAGGGGTATAGATAGAAGGCGATTGAACGGCTCTAGCGCACGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1239:7634:7758.dup.2/1
+GCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGCAGAAAGTTGCCAGATGAAAAGTCACACGGATTTAACTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1240:7129:7254/1
+CTCAGTCCTACTCAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACTACAAGAAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1241:5803:5927/1
+ACAGGTAGCTGCTGCCCGAACTCTTAAACAAGCTAGCAAGCTAATTAGCCGTCATTAATAAACTGTCTCACGGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1242:4058:4182/1
+GTTCTACGTGCAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1243:8796:8919/1
+CCAGCGGTGGAATGTTAATCCATGACGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACTAATACGATAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1244:8133:8255/1
+AATAGGCCGGTTCGAAGCGGCTGTGGCACAAAAGACAACATGCTCTCTGAGCTCACCATAGCGACGCCGACGCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1245:8141:8265/1
+GGTTCGAAGCGGCTGTGGCACAAAAGACAACATGCTCTCTGAGCTCACCATAGCGACGCCGACGCAAATCATCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1246:1155:1279/1
+GGTCCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATCTACACGGGTACTATGTACGAGAGTTGGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1247:649:772/1
+AGTCTACGGCTAGGATCCTCCTCGAAACTTAGCATTGCAGGCACACTTGATGACACCTACGTATCACGCGTCCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1248:9205:9328/1
+ATAGGAGAATAGGTCTCTATTACTGAAATAATTGACCGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1249:4252:4375/1
+GGATTTTCGGCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTCCTCAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1250:5619:5743/1
+CAGGCTCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1251:942:1067/1
+GATACTTGTGCATGAGGCCTGATTAAGGATACCTCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1252:7058:7181/1
+TTCCCCGGAACTTAGGGGCTCCTGAACATCTCGTCGGCAAGGCAGTAGTTGGTACTCGGTTGAGGTGGCCGCTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1253:1106:1229/1
+AGCCAATGAAGAGACCACGTTACTCTATGGATAAGACCTAGTCACGGCAGGTCCCGGGGTGAAATCATGGATGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1254:6736:6861/1
+CATTTTCCACAACCGAGACACTTTTGAGTTCATATTAGCCGGCATGTTGGAGGCGGCCATAAGGTACGCTTGTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1255:1863:1986/1
+AAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAACGTCAGAGATTTAGTCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1256:7372:7494/1
+GTTACAGTTTCATGGCTGCACTAGACTCACGAATCACAATTACTGTAGTACTAAATGACAGTCTGCATTCTACTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1257:5948:6071/1
+GAGAGTCGGTTTGCTTGTTCCTTTCCGCCAACTGATCTGGGGTCCTTTGGGGCTATTGGCCGGTCCAGGTAGCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1258:4523:4647/1
+CGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGTATGTTTAGGTGGCATATTAACTGCGTCACGGCCGCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1259:6214:6338/1
+TGTTGCGGCAGTGAGAGATGCGGGACCTCATCGGGCAGTTTCGACCCCGGAATGACCGGCGAACCTAGAAGAAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1260:6116:6240/1
+GGAGACTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCAGACCTGGTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1261:117:240/1
+GGTAGGAGGGGCTTTCGGGAAGGGGACACGCCCCCCACGTTGAACGACTGGCGTAATTAGCACGCCCGTGGAGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1262:7600:7722/1
+ATATCCAGACCGGCGTTCCCGCCGTCCGCGACATGCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGCAGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1263:2102:2226/1
+AGGAGGACGGGCCTGCCGCTGAGGACAATTCATAGCCGGACATTATACCTCATGGACACGTGCCTTTGCCACCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1264:8111:8238/1
+ATCTTAGAGGAGCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGCACAAAAGACAACATGCTCTCTGAGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1265:8220:8344/1
+GGCCACTCTCGTGAGGACCGTCTTCCCTGAGCGATATTTTTGACGGGGTGCTGGATGTAACCCAGCACGCCGAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1266:9287:9412/1
+GCCTCGGGGGCTACACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACTTCGGCGTAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1267:4049:4173/1
+TCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1268:6347:6470/1
+ACAGCACAGCGATAGAACACTATCGTTTGCTCGGCGCGCGATGTTTGAGTAGGACCACCGAAATGAGGGTGCTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1269:5357:5480/1
+CATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAGTGCTCCAGGGTTGCTGAACGACCACCGTCTAACTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1270:4124:4248/1
+ACCTGCCGGACTTGAAGACTGTGAGCGGTTCCTTATTTATATGCAGCAAAGCTAAGTAAGAGGCTGGAAGACGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1271:2056:2180/1
+GCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGTAAGGAGGACGGGCCTGCCGCTGAGGACAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1272:9402:9528/1
+ACTTATGAGGATCTCAAGTTATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCACACGGGCCGCTTAATTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1273:350:472/1
+CGCAAATACTATAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGCCATAACGGTCCACTAGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1274:7872:7996/1
+GTTAGGACCTTCCGAATACTACACTTCAAGCTGGAATTGATCACGATCGGCTCTGTATCGATATATTATCCGTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1275:9293:9417/1
+GGGGCTACACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACTTCGGCGTAACTGTGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1276:4132:4256/1
+GACTTGAAGACTGTGAGCGGTTCCTTATTTATATGCAGCAAAGCTAAGTAAGAGGCTGGAAGACGCCTTTAGGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1277:9253:9375/1
+TGGCAGTTGTAGACATATGTGGTTCGCTTGGCATGCCTCGGGGGCTACACTAAATGAGATCCTTATAGTTGAAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1278:5596:5719/1
+ACGGGAGGAGAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCGAGGCGCGCGCGAACCACATTGTGATGCCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1279:9017:9140/1
+TTGGTCATGGTGCTGTTACCAGTCGGGTGGGCGCGAAGTATAGCTGTGGAGGGCACGTCCCGACATTCCTAGACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1280:9707:9830/1
+ATTACTCTTAAGTTCTGTTAGGTTTCAGGATGATGCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1281:9507:9631/1
+TTAGGGGACCGGTAGCAGGGTAACATTGAATTTGTAGAACCCAACAAGCACTTTATCAAGCGGGACGTAGAGAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1282:6645:6770/1
+TTCTTGTTTTCTCAGACATGTATTGTACAAAAGACTGCGTACAGATAAGGAACTGTTGCCGTGATTCATCATTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1283:25:150/1
+CCTTCTACACTGCTTTGTTCTGGTCCGCCAGTCCACTTATCCCACCGCTAGCCTTCGCTTGTCACTTGGGCATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1284:9766:9889/1
+CTTAGCGTGAAATGACGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCGAACCGTAGATTTAGAACTGCATCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1285:4057:4182/1
+AGTTCTACGTGCAATCTCTGAATGAACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1286:625:749/1
+CGCCCGTGGTGCTGAGCGCCTCCTAGTCTACGGCTAGGATCCTCCTCGAAACTTAGCATTGCAGGCACACTTGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1287:9449:9573/1
+GAAACTCGCACACGGGCCGCTTAATTCCGTTCATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1288:3115:3238/1
+GGCGTCCGGGGAGTTTTCCACTTTGTTCAAGGCTGAACGCAAGTGTATGTACTCTTGACTACATTATTGCCAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1289:6087:6210/1
+ATCTTTGCGGCAAATAGGCTCTTCGTACCGGAGACTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1290:7847:7971/1
+ACCCCTAAGGTGTTCTGATGCACCGGTTAGGACCTTCCGAATACTACACTTCAAGCTGGAATTGATCACGATCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1291:2028:2151/1
+GTAACTTTCCAAGACCCCGGATCGCGCGGCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1292:8988:9112/1
+CTTCTTTACCAGAGATTGGCAGCCCGGCGTTGGTCATGGTGCTGTTACCAGTCGGGTGGGCGCGAAGTATAGCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1293:9:132/1
+GGGTCGTTCCGTCGAACCTTCTACACTGCTTTGTTCTGGTCCGCCAGTCCACTTATCCCACCGCTAGCCTTCGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1294:8646:8767/1
+TGTCAATGACAATACGAGCCACCTCATCTGACGCCCGGAGTGAACCGCAGGAATAGCTGATGGTAGAATTGCGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1295:4282:4407/1
+TAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTCCTCAAAATTAGGGGTATAGATAGAAGGCGATTGAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1296:9208:9332/1
+GGAGAATAGGTCTCTATTACTGAAATAATTGACCGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTCGCTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1297:1624:1748/1
+CCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAATTAAGCGTACAACCATCTAGTGCGCAACGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1298:5553:5678/1
+TGAATACGTACGCCGTATATTTACAAAAACCGATAGTGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGCTCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1299:7546:7669/1
+AGTCACAAAGGACATAGGGTTTCACAGAATACCGGACAAAGAGCAACTATTACCATATCCAGACCGGCGTTCCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1300:5874:5999/1
+GGCGATGTAGAAGAAGATCCAACATTTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGAACCGAGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1301:7479:7603/1
+ACCGTTCCTTTCGATGGGAAGGCGAAAGGCGGATAAAGGAGTTGAGGGTTACATACCATAACAACGGAGTCACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1302:5824:5947/1
+TCTTAAACAAGCTAGCAAGCTAATTAGCCGTCATTAATAAACTGTCTCACGGCGATGTAGAAGAAGATCCAACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1303:3605:3730/1
+ACCCGAATTACACCCTGCTAGATCATCTCTTACTGCTAACTCGCTCTCTCATAAAAGATCTATGCGGAATAGCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1304:2404:2526/1
+TTCGCGCTCGACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGTGCGTTCATTGTATATTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1305:9495:9619/1
+TAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTGTAGAACCCAACAAGCACTTTATCAAGCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1306:8819:8943/1
+GACGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACTAATACGATAGTATAGATCCTCCTGCTCTCTAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1307:2726:2849/1
+CACACGATGCACTGTCACCGCTACTGTGATGAATGGACCTTCTACCGATCGGAGCCCTGGTTTTGGCTTTAATATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1308:2490:2615/1
+AATTCACACGGGAAGAGAGGTAAATTAGGTACTTAACTTGCGCCATCCCCAAATGCTCTTACCATAATAGCAAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1309:5164:5287/1
+CTCTGGTTGGGTCCTGATGAGGTACCCTCGCACAGATGCCTCTACTGCTGGTTATTATAGGAGCAAGAGGCCAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1310:4407:4531/1
+ACTAACAATAAGGGCATGGATGGAAGCGCGAGAATTAAGGAGATAGCATCGAAGCTGTTGCGGTTTTTAGCTTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1311:3152:3276/1
+CGCAAGTGTATGTACTCTTGACTACATTATTGCCAAAGACTATAGTATACGTGCGACCTTAAAGGCACGCTATTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1312:3662:3787/1
+ATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCATTGGGAGCGTGGCTAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1313:4010:4133/1
+CTACTTCAGAGCGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATGAACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1314:3163:3288/1
+GTACTCTTGACTACATTATTGCCAAAGACTATAGTATACGTGCGACCTTAAAGGCACGCTATTGCATGAGTGTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1315:401:523/1
+GATAGTCGGACGTTAACTCTCAGCTAAGACTGAGGCGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1316:738:861/1
+ATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1317:565:688/1
+AAACATAACAGACTGACGAATTAGCGCCGTGGGGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1318:584:707/1
+ATTAGCGCCGTGGGGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1319:1808:1931/1
+GTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1320:120:244/1
+GTAGTACCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACGGTCTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1321:1104:1227/1
+TACCCATCGCACAGCGCAACCCCACACACTGTACATCCAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1322:1466:1589/1
+GGAAGTCATTAACCACGGGTCGCTCCCCGAGACTAGCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1323:1043:1168/1
+CCCACAGGGCTAAGGCACGTATCATCGTCCGAGCCTATGAGGAACAGTCCATGACATTTCTTACCCATCGCACAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1324:914:1037/1
+GAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTATCACCACCCTACGGAGGGACTGAGATCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1325:26:148/1
+CGCTAGACACATGTATGACCATCCGGTGTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1326:196:316/1
+AGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGGACCATCATGAAGGATCATTCCGGACCCGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1327:2132:2255/1
+ATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1328:1518:1641/1
+CTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTCTAGATCTCAAGACGTTTTTGCTCTCGGGCCTGCACAACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1329:1919:2042/1
+TTGTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAACACCCCATGCGCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1330:97:220/1
+GTATCCCCGCCAGGATATGGGCCGTAGTACCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1331:148:273/1
+GTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACGGTCTGGTAGAACGGGTTGATGCCCGACCAATCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1332:64:187/1
+TTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTACCCAATCACGTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1333:14:138/1
+ACACTCCAGAGCCGCTAGACACATGTATGACCATCCGGTGTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1334:1871:1993/1
+TATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1335:1068:1192/1
+CGTCCGAGCCTATGAGGAACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACACACTGTACATCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1336:1145:1269/1
+AGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1337:1130:1254/1
+CACTGTACATCCAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1338:486:610/1
+CTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTGAAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1339:1152:1275/1
+GATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATTCAGGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1340:756:880/1
+CTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1341:781:904/1
+TACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGCGAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1342:1633:1756/1
+GCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1343:1818:1943/1
+CGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTCCTTTACTACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1344:1647:1773/1
+TATCCTGGTATACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1345:185:308/1
+TACGGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGGACCATCATGAAGGATCATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1346:2015:2139/1
+GGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1347:296:420/1
+CCACTTGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTCTTAAAATGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1348:2191:2314/1
+TTCCGACACAGTCTACAACCTTGATACATTGAACCCTCCAAGCTATGTTCGTCATGCTCGGAGATATACCACTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1349:1415:1539/1
+TCGTTCGGCACTTAGATTAGACAGGACATTTTAGCCACCAGTATATACTCCGGAAGTCATTAACCACGGGTCGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1350:1291:1415/1
+CAGGGTAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1351:1195:1319/1
+ATCACGTGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAGTGACGCGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1352:1189:1313/1
+CCCTCCATCACGTGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAGTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1353:970:1094/1
+TACGGAGGGACTGAGATCGCTTGCACCAGATTTTATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1354:1358:1482/1
+ACCAAGAGTACAGGTGGTTGTCCATCATGCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1355:892:1015/1
+ATCTGATCCAAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTATCACCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1356:431:555/1
+TGAGGCGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGCTGCTAACCGTTCACCGAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1357:183:307/1
+CGTACGGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGGACCATCATGAAGGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1358:1805:1928/1
+GCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1359:1478:1601/1
+CCACGGGTCGCTCCCCGAGACTAGCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1360:839:961/1
+GACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCAAATCGGGAGGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1361:1328:1453/1
+AGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCCATCATGCCCGATCGGGTTGCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1362:1936:2060/1
+TGGCTCCAGTGCGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAACACCCCATGCGCAGGATAATCTGGTATTTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1363:145:269/1
+GTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACGGTCTGGTAGAACGGGTTGATGCCCGACCAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1364:1164:1287/1
+AGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1365:583:706/1
+AATTAGCGCCGTGGGGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1366:386:510/1
+AGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTAAGACTGAGGCGCCATTCAGTCTGACACTGTCTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1367:755:877/1
+GCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1368:110:233/1
+GATATGGGCCGTAGTACCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1369:1997:2120/1
+AATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1370:1995:2116/1
+ATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1371:834:957/1
+GTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCAAATCGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1372:1007:1131/1
+CGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTATCATCGTCCGAGCCTATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1373:1882:2004/1
+TTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1374:1149:1271/1
+GTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATTCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1375:1037:1161/1
+TCACCGCCCACAGGGCTAAGGCACGTATCATCGTCCGAGCCTATGAGGAACAGTCCATGACATTTCTTACCCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1376:1386:1508/1
+GCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTAGACAGGACATTTTAGCCACCAGTATATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1377:411:535/1
+CGTTAACTCTCAGCTAAGACTGAGGCGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1378:657:780/1
+GTCATTATCTGACTCCTATGTTCCACACTCAGGGAGAGATTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1379:580:702/1
+ACGAATTAGCGCCGTGGGGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1380:897:1021/1
+ATCCAAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTATCACCACCCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1381:144:270/1
+TGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACGGTCTGGTAGAACGGGTTGATGCCCGACCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1382:27:150/1
+GCTAGACACATGTATGACCATCCGGTGTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1383:1775:1899/1
+TCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1384:132:256/1
+CACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTTCACGTACGGTCTGGTAGAACGGGTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1385:1220:1344/1
+TCAGGCTCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAGTGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1386:829:952/1
+GATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1387:989:1113/1
+CTTGCACCAGATTTTATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1388:1670:1793/1
+TTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGAAGTATTCTCACCAGCCTGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1389:557:680/1
+AAAAAAAAAAACATAACAGACTGACGAATTAGCGCCGTGGGGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1390:842:966/1
+GGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCAAATCGGGAGGGGGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1391:2114:2237/1
+CTACCGCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1392:1873:1994/1
+TAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1393:880:1005/1
+ATATCCTGGGTGATCTGATCCAAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1394:74:198/1
+CCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCGTAGTACCCAATCACGTTCCTGCCTGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1395:664:788/1
+TCTGACTCCTATGTTCCACACTCAGGGAGAGATTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1396:721:846/1
+AAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGATTACTGCATGTGAATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1397:1958:2081/1
+ATTTTCTAGCGCGCGCGTGAAACACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1398:2136:2259/1
+GAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1399:826:948/1
+GGAGATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1400:262:386/1
+GGACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACTTGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1401:292:416/1
+CGCACCACTTGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTCTTAAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1402:1199:1321/1
+CGTGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAGTGACGCGAAGTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1403:330:455/1
+GTTATAGATATACGAGTGCACGCGAACAGTCTTAAAATGTAATAGTGCCTGAATCTAGCCCCATGCAAGTGGATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1404:1872:1996/1
+ATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1405:415:539/1
+AACTCTCAGCTAAGACTGAGGCGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGCTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1406:680:801/1
+CACACTCAGGGAGAGATTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACATATCAAGTCTACGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1407:1658:1779/1
+ACCACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGAAGTATTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1408:33:157/1
+CACATGTATGACCATCCGGTGTGGTCACAATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1409:1922:2045/1
+TGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAACACCCCATGCGCAGGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1410:2152:2276/1
+TGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCTTGATACATTGAACCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1411:1947:2070/1
+CGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAACACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1412:675:799/1
+TGTTCCACACTCAGGGAGAGATTGGCTTGGAGGCATTAGGGGTTCTAAGACCTGCGATGCTACATATCAAGTCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1413:1982:2104/1
+CCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1414:2054:2176/1
+GTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCTCTTCCGTGCCTTACTACCGCTCGCGGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1415:1076:1199/1
+CCTATGAGGAACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACACACTGTACATCCAACAGGTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1416:832:953/1
+GTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCAAATCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1417:1717:1840/1
+AGTAGAGAAGTATTCTCACCAGCCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1418:1750:1875/1
+TAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGGCGATGTCGCACGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1419:1962:2086/1
+TCTAGCGCGCGCGTGAAACACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1420:384:507/1
+CTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTAAGACTGAGGCGCCATTCAGTCTGACACTGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1421:801:925/1
+TTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGCGAAACACTTGGCAGAAACATTAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1422:1296:1419/1
+TAGGTGCAAGTGGAGTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1423:1310:1433/1
+GTACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCCATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1424:1312:1436/1
+ACTAGGTTGGTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCCATCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1425:485:608/1
+GCTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTGAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1426:1150:1272/1
+TCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCACATTCAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1427:1142:1265/1
+AACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAGGTAGCCGCATCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1428:846:971/1
+TTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCCAAATCGGGAGGGGGAGGAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1429:1013:1139/1
+TTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTATCATCGTCCGAGCCTATGAGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1430:1129:1250/1
+ACACTGTACATCCAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1431:2014:2138/1
+TGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1432:1545:1668/1
+TTTTCACTCTAGATCTCAAGACGTTTTTGCTCTCGGGCCTGCACAACGTCCGCGAACTGACAAAAGGGAATTTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1433:776:900/1
+CAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGATTTCGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1434:617:741/1
+CCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCATTATCTGACTCCTATGTTCCACACTCAGGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1435:1861:1986/1
+CCTTGTCTTTTATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1436:1863:1988/1
+TTGTCTTTTATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1437:1717:1840.dup.2/1
+AGTAGAGAAGTATTCTCACCAGCCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1438:1389:1512/1
+CGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTAGACAGGACATTTTAGCCACCAGTATATACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1439:1736:1861/1
+CAGCCTGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAGGATTGCAGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1440:320:443/1
+ATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTCTTAAAATGTAATAGTGCCTGAATCTAGCCCCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1441:448:572/1
+TGACACTGTCTCTAGACGACTTCCAATCAGAATTAATGCTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1442:190:312/1
+TCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGGACCATCATGAAGGATCATTCCGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1443:531:655/1
+CTCTGTTATGAATGCCCGGCCAGCTGAAAAAAAAAAACATAACAGACTGACGAATTAGCGCCGTGGGGAGAAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1444:328:450/1
+AAGTTATAGATATACGAGTGCACGCGAACAGTCTTAAAATGTAATAGTGCCTGAATCTAGCCCCATGCAAGTGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1445:957:1080/1
+CGTATCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGATTTTATGCGGTGGTTACGGCCGGTTCTTTGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1446:1409:1533/1
+TTAGGGTCGTTCGGCACTTAGATTAGACAGGACATTTTAGCCACCAGTATATACTCCGGAAGTCATTAACCACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1447:263:386/1
+GACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACTTGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1448:963:1087/1
+ACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGATTTTATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1449:374:498/1
+GTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTAAGACTGAGGCGCCATTCAGTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1450:1009:1131/1
+GTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTATCATCGTCCGAGCCTATGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1451:971:1094/1
+ACGGAGGGACTGAGATCGCTTGCACCAGATTTTATGCGGTGGTTACGGCCGGTTCTTTGGAATAATTCACCGCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1452:1243:1367/1
+TGAACCTCGGTTGGGCAGTGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1453:870:994/1
+ATTAAGAAAAATATCCTGGGTGATCTGATCCAAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1454:1975:2098/1
+TGAAACACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAGTGCTTCGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1455:2135:2257/1
+CGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1456:351:475/1
+GCGAACAGTCTTAAAATGTAATAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCTCAGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1457:911:1035/1
+GGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTATCACCACCCTACGGAGGGACTGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1458:1226:1352/1
+TCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAGTGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1459:597:721/1
+GGAGAAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCATTATCTGACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1460:1607:1729/1
+AAAGGGAATTTGGCGGGTCCGGCAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1461:770:893/1
+TGGCCCCAGATTACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGACGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1462:514:635/1
+TAGGACAAGTCCCAAAACTCTGTTATGAATGCCCGGCCAGCTGAAAAAAAAAAACATAACAGACTGACGAATTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1463:1839:1961/1
+GACTAACTCCGTTAGCCCACGACCTTGTCTTTTATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1464:1606:1731/1
+AAAAGGGAATTTGGCGGGTCCGGCAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1465:99:223/1
+ATCCCCGCCAGGATATGGGCCGTAGTACCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1466:1232:1355/1
+TCCGGGTTTCATGAACCTCGGTTGGGCAGTGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1467:2128:2251/1
+AGGCATTCGAGGAACATAAGGTCGTGGTGGGCGACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1468:154:279/1
+TAGCTCAACGTGGAAGGAAATGTGCTTCACGTACGGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1469:1661:1784/1
+ACGTATCGTTTATCCGTTAGAGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGAAGTATTCTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1470:1102:1225/1
+CTTACCCATCGCACAGCGCAACCCCACACACTGTACATCCAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1471:1885:2009/1
+ACTACCTGTTACGCATTGATTATTAGTATGATACTTGTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.reads_2.fq b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.reads_2.fq
new file mode 100644
index 0000000..d8558c1
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.reads_2.fq
@@ -0,0 +1,5884 @@
+ at ref1:1:9604:9726/2
+TCTATGGGCCCTTGAGCGTAAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:2:8746:8871/2
+CTATAAGAGGTGACGGCTCACGAGGAAGAACTCGGAAACTGTACCGCAGGGACAGGTTACGCAAGTTTACACAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:3:481:605/2
+GGAACATAGGAGTCAGATAATGACATCGAGGTACTAGCTGCGTGATGTCTGCCCCCCGTAAGGGTGCGATAGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:4:319:443/2
+TCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGATTGGAAGTCGTCTAGAGACAGTGTCAGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:5:4773:4896/2
+AAAAGACGTTCCCGCGGATCCTCCAGGTACAGCACTGGGAGTTGACGCCGAACCCAGCGAATTTAGCCATACGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:6:4716:4841/2
+AGCGAATTTAGCCATACGTACACCAAAGGACTCCGTTACGGCGTTGCGGCCATGTAGACGATCTAGCTCCAGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:7:4172:4296/2
+TCATTCGATTCGTAGTCGGTATTATTACTATCACTCGTCAACTTCTATGGCGAGACGGATCAATGATAACACGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:8:181:303/2
+GGCACTTTTACATTTTAAGACTGTTCGCGTGCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:9:5423:5546/2
+CAGTGTCAGAGTAGACATACACATACGATGACCCAATTACGCGCAAAGGTAACCAAGCCGCATAGGCGACACCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:10:710:834/2
+TCCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATGTTTCTGCCAAGTGTTTCGCCGAAATCCGTCCTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:11:8787:8910/2
+AAAGTCGGTATGAGCTAACCGTCGGCTTTTCTCGCCGAGCTATAAGAGGTGACGGCTCACGAGGAAGAACTCGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:12:3609:3732/2
+TGGAATGCGGCCTCCGTCGGATGCAAATAGCGTACGATTTGTCATAGACTCTCATATAACCTCGTGGAAAGCCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:13:9248:9372/2
+TAGCGTGGGTCTTGAACAACGATATTCGCAAATAGGACAGGCCGGTACTACAACTCCTGACTGAACTTTGTTCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:14:3514:3639/2
+TTATCAAAACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCGGATCCCCCTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:15:4140:4264/2
+ACTCGTCAACTTCTATGGCGAGACGGATCAATGATAACACGAGCTTTACGTTGGAGTGTATATATATGAGAGTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:16:508:633/2
+GCCTCCAAGCCAACTTCCGACTGAGTGTGGAACATAGGAGTCAGATAATGACATCGAGGTACTAGCTGCGTGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:17:3586:3709/2
+CAAATAGCGTACGATTTGTCATAGACTCTCATATAACCTCGTGGAAAGCCGAGTTCTCGTGCATAAGATTTTATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:18:795:918/2
+GCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:19:5944:6068/2
+TTGTGACTCTGAAGCCCGCCAAGCAAGGAGCTTACAACATGGTCACTCCGCGGCTCACGTTATTAAGTCTATACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:20:6480:6603/2
+AACTTAGCTCCATTATTAGTGTTACTCCGAGACTGATGTATGCCTATACATTATCCTACCAGGAACGTAGTCAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:21:606:729/2
+AGAATGTCTCATTCACATGCAGTAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:22:9381:9506/2
+CGCCCCCCCGCACATCACTCGTGTTTGCTTTCGGTCGGGATGTCTTTCGAATCTGTACACACGGATGTTTTATCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:23:8935:9056/2
+TGTATAGCCGAGGACCAAGACGTCCTTCGCTCCCCTTTACAGTCGGCCTGTCGGTATATTTAATATCCGTAGCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:24:4551:4675/2
+ATGAAAATCCAACAATGTGCTTGCTCTGGGGACCACTGGCGTCATGCCGCGTCTCAGGTGAAAACTCGTGTTGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:25:288:411/2
+GCATTAATTCTGATTGGAAGTCGTCTAGAGACAGTGTCAGACTGAATGGCCCCTCAGTCTTAGCTGAGAGTTAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:26:4890:5016/2
+ATTTAGACCCCCAGCAGCGCGGACCCTTATTTCAGGAGCGCGAGTACCAATTGTGGTCCTCGTCTTTGATAGTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:27:6072:6195/2
+CGAATATGTCATATGGCCTAACGTGATGGGGACCTCCTCGTCAACGGACGAGTCCACCTCAGACAATCTCCGTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:28:4159:4284/2
+TAGTCGGTATTATTACTATCACTCGTCAACTTCTATGGCGAGACGGATCAATGATAACACGAGCTTTACGTTGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:29:2576:2698/2
+AATCCAGCGCATGGCTTGTCTATACTTACCACCTTTAACGCTCCAGTCTTGTGCTGAGGCCGTTCGAACATGAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:30:7087:7207/2
+AACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCTATGTGGCGTTATAGGCCCACGGCCAGCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:31:1813:1937/2
+CAAAAAATACCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:32:5990:6113/2
+TAGGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGACTCTGAAGCCCGCCAAGCAAGGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:33:2033:2156/2
+TTGGAGGGTTCAATGTATCAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:34:8011:8135/2
+CCAGATTAACGATGACACCACAACGTTGTCCTAATATGTTAGCCAAGAGAACGCAGAGGCTACCGGCTATAAACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:35:3068:3194/2
+CCACCTATAGCATCAACTGTCCTGTGATCAGAGGCTCATTTAGTTTGTTGTATGCCCAACTCATTGTGGCGTACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:36:8212:8336/2
+GACAATCAGAAGTATATGTCCCTGGGCCCTCAGCTATACGGGCTTGTAAATGCTGTCACGTACTTGTCACAATCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:37:5666:5790/2
+GTGCTACGGGATGGATCTAGTTTACAGAGTATCGGGCTGCGATTGCTTTCACTGGCACTTAAATGGTCTATGACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:38:3426:3551/2
+CAATGGGCATAGCGGTGAAACCGGTATCCGTCCCTGGGACATTAAGACAGCAGAGTCGGAAAGAAGAGTTCACGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:39:7751:7875/2
+GCTCCAAACCTCCTCCCCACTGTCTCCCAAAGTCAGACGTAGGACAGTGCCTATTGTCCGCAACGAGCGACTCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:40:660:784/2
+AGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTCATTCACATGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:41:4179:4303/2
+GTCCAATTCATTCGATTCGTAGTCGGTATTATTACTATCACTCGTCAACTTCTATGGCGAGACGGATCAATGATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:42:963:1087/2
+CCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:43:3332:3456/2
+GCGAATTTTAGATGCGGCGTAGAAAGGCGGACCCATTACGCTTATTCGGGCACATACCGCATAACTTTCGGGGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:44:438:561/2
+ATGTCTGCCCCCCGTAAGGGTGCGATAGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGTTATGCGTTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:45:6153:6275/2
+GTTGCCATTGGCATGCGTTAACGTGTAAATTGGCAAAGGTTGCTCCCCTACTGTGGGACTTGCATACCTATTCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:46:7539:7664/2
+CAACGGATGACTATTAAGGCTAGCGTAAATATAATATTAGCATTATTGTCTGTATCTCGCCTGACGGTCATTAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:47:3470:3594/2
+TACTGCGTACCACCTGGCGGATCCCCCTCGTAGATCCGAGTTCCAATGGGCATAGCGGTGAAACCGGTATCCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:48:4390:4512/2
+CTAGATAGTATGCACGGCCTCTAAGCTTGTGTGCTTTGAATCATAGCCCGCTAATGAGCCGAGTTTGATGAGGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:49:8285:8410/2
+CTTATACAGCTCTCCGAATTTCCCTGCGTCAGGCATGATGTCGCGCCTCTGTCACTGATCGTTTCGCGATCCGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:50:1784:1907/2
+GTGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:51:9495:9618/2
+CCAAGGTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:52:4544:4667/2
+CCAACAATGTGCTTGCTCTGGGGACCACTGGCGTCATGCCGCGTCTCAGGTGAAAACTCGTGTTGATTTCCTGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:53:87:210/2
+CTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:54:9524:9647/2
+AGAATCCACACGAACTCTCATCTGCTATGCCAAGGTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:55:599:723/2
+TCTCATTCACATGCAGTAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:56:5889:6014/2
+TCACGTTATTAAGTCTATACATGATTCTGAGCATAAAACGTCATTACCTTAGTAGGGGATAGATACAAACTCTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:57:1595:1720/2
+AGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTGGAACTAGCCGGTTCAGGCTGGTGAGAATACTTCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:58:38:161/2
+GACGCCGGAAATCAATGATTGGTCGGGCATCAACCCGTTCTACCAGACTGTACGTGAAGCACATTTCCTTCCACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:59:7046:7169/2
+TTATGTCTATGTGGCGTTATAGGCCCACGGCCAGCCGTAGTAGTAGCTTGCCCCAGAATGTTTACCCGACTTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:60:8947:9071/2
+ACCCTGTACATAGGTTGTATAGCCGAGGACCAAGACGTCCTTCGCTCCCCTTTACAGTCGGCCTGTCGGTATATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:61:7622:7745/2
+CAGGGTATTTTGGGGAGGACATCAACCTACAAGTATTGCCGCGATTCGAAGATCCGTGGATATCATCGGTGAGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:62:7991:8115/2
+CAACGTTGTCCTAATATGTTAGCCAAGAGAACGCAGAGGCTACCGGCTATAAACCCTAGCAGTGGAAATACGTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:63:8842:8967/2
+CTTTAATAATACGGATCTAATCTCCGTTAACGGACAGTGAGAAAACATGATCAATCGAAAGTCGGTATGAGCTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:64:4997:5120/2
+ATCGCGACGTTGGAAGGGCCTCCTGCCCATAGAATCCGTTTCTATTCCCGCGGTAGTCTTAAAGGTACAAATAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:65:3970:4094/2
+TTACAGGCTTCTGTGCGGATAGGTTCCGTAAGAGGTGAAACGCTTTTAGTGATTGCAGGGCAATCGAGTATCCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:66:5765:5890/2
+CATCCACGACACGCGCATTTGAAATGGCCCTGTAAGGGTACGTTTTGGACCGTGTTACTGCCCCGGGCGTTCGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:67:5665:5788/2
+GCTACGGGATGGATCTAGTTTACAGAGTATCGGGCTGCGATTGCTTTCACTGGCACTTAAATGGTCTATGACTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:68:9466:9589/2
+TATACGCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCATCTTGGCTACTCTCGCACATGATGGGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:69:3418:3542/2
+TAGCGGTGAAACCGGTATCCGTCCCTGGGACATTAAGACAGCAGAGTCGGAAAGAAGAGTTCACGGTCGCATTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:70:3884:4007/2
+GTTTTATGTAGATGGGTTGCGACTGTGGAGAGGGGTTTAGCCACGCGGTAATTCTGCACGTGGGTATGACGTAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:71:9409:9534/2
+ACTCTCGCACATGATGGGGCGCCGGACACGCCCCCCCGCACATCACTCGTGTTTGCTTTCGGTCGGGATGTCTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:72:9156:9278/2
+AGTATCATTGGTTTCCGCAGTCTACCCGTGTCATAGTGATCGCTAGATATTTATGGTAATGTTCCTGAGATAACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:73:7751:7875.dup.2/2
+GCTCCAAACCTCCTCCCCACTGTCTCCCAAAGTCAGACGTAGGACAGTGCCTATTGTCCGCAACGAGCGACTCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:74:5634:5757/2
+GGGCTGCGATTGCTTTCACTGGCACTTAAATGGTCTATGACTTCACTATAAGTCTAGACACGATACGGCCTCGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:75:3714:3839/2
+GTGGACCAAGCCTAAGACAGGGTCTATCACACTGTATTCTACACCCGGGGTCAGACACCGTAGTCTTATCCTAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:76:6633:6755/2
+CACTCGGAGGTATTTACGTCAGAGTCATTCTTATGCATGTCCCAACTCATATCGGTGGGTTGAGCGGCGCCACCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:77:4772:4894/2
+AAGACGTTCCCGCGGATCCTCCAGGTACAGCACTGGGAGTTGACGCCGAACCCAGCGAATTTAGCCATACGTACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:78:82:206/2
+GTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:79:2247:2370/2
+GACGGTATCCCAGGCTTAGCATCGAACCAATATGACCTAGTGCACGAGCCCTTTTCAGCATCCACCAATTCAAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:80:7761:7886/2
+CTCTCCAACCGGCTCCAAACCTCCTCCCCACTGTCTCCCAAAGTCAGACGTAGGACAGTGCCTATTGTCCGCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:81:5126:5249/2
+TGGGACCATGCCCGCGTAAAGTGGGGGCCGTTCAGGATTGCCGGTATTAGGCGCTGAGGCTGAATCGGCTAACGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:82:4937:5061/2
+TAAAGGTACAAATAGACGAGGAGCCTAATCCCGGCCAGAAGCCTGATTTAGACCCCCAGCAGCGCGGACCCTTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:83:7376:7499/2
+GGCGTCCGTACCCGAAGTTCCTATACTCCACGTCCCTATCGGTTCATGCGCCCTCGATGTAACTAGTGATGTTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:84:6572:6696/2
+TTGAGCGGCGCCACCGTGGGGCTAGGGTAGAAGGATAGCCAGTGTGCCGGGTCGGTCCCTGCTGGTGAAAACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:85:658:780/2
+TTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTCATTCACATGCAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:86:9489:9612/2
+TTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCATCTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:87:8436:8559/2
+TGACCCCTAGGCGAGTGGACGTTACTCTAGAAAGCAATACTCACTGAGAGTCTTGGACAACAACCTATTAAGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:88:3305:3428/2
+GGACCCATTACGCTTATTCGGGCACATACCGCATAACTTTCGGGGTGGGTTTGGGGTGAAGTCTTTAACTGCAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:89:8117:8240/2
+CTTAAACACGACTATGGATCTATTGCTCACTTGCATCCGAACAATATAATGGTAGACTAAAGCTTGATAATTTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:90:9597:9720/2
+GGCCCTTGAGCGTAAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTTGGTGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:91:4195:4319/2
+TAAGATACCACTCTTCGTCCAATTCATTCGATTCGTAGTCGGTATTATTACTATCACTCGTCAACTTCTATGGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:92:2972:3096/2
+TATCAATACTTAGGGAAAGTGGATCGGTGGAGCAACTCTAGTATAAATTACTTGCCAGCATATCGCTCGGCAAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:93:6918:7043/2
+TCTCACTAAAGGATCAGTCGCTGCCTTCCTAGGAACAACACGTGTGCCCGATGCCGGTGGAGGAAGTGACGGTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:94:6307:6429/2
+ATATTGGCCCGAGAGACCTATAGTCCTTGCTATACGAGCTTTCTGCAAGTTAGACTGACTAACCGCAGATTTCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:95:795:920/2
+GTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:96:9712:9835/2
+ACTGATCCACTTACCTACAAAGGGGGAGACTATTAAGACCGTCTGTAAAAATAGCATTTTGCGGCGTGGTCCCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:97:2028:2153/2
+GAGGGTTCAATGTATCAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:98:4657:4781/2
+ATCTAGCTCCAGCGGATGACTATAGGACACGATAATACGTGCCTAACTTAACCGAAGACAAACCGTTCACCTGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:99:5537:5659/2
+TATTGAATATAGCACCCTTAAATTCGCATTCTTTCGGCGGGGCCTCTACCCAGACGAAACCCGGCCCCTCATCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:100:95:218/2
+CGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:101:5105:5228/2
+TGGGGGCCGTTCAGGATTGCCGGTATTAGGCGCTGAGGCTGAATCGGCTAACGACTGTGGTGACAGCTATCCCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:102:4339:4462/2
+CTAATGAGCCGAGTTTGATGAGGTACGATCCTTGGTTTCAGCTTTCGAGATCGCGAAATGCTGTAGCGGATAGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:103:8179:8303/2
+CTATACGGGCTTGTAAATGCTGTCACGTACTTGTCACAATCGCGGAAGCGACTCAGGCGTGGGCTTAAACACGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:104:9253:9376/2
+ATTGTAGCGTGGGTCTTGAACAACGATATTCGCAAATAGGACAGGCCGGTACTACAACTCCTGACTGAACTTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:105:6711:6836/2
+CTATCACGATTAGCGGCTAAGGTGATACTTTGGACCACAAGCCGACCCTGTTAGAGGTTTAGCGCGATTTGTATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:106:6005:6128/2
+CTCCGTGCGGAACGATAGGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGACTCTGAAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:107:8835:8959/2
+ATACGGATCTAATCTCCGTTAACGGACAGTGAGAAAACATGATCAATCGAAAGTCGGTATGAGCTAACCGTCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:108:6195:6319/2
+TTTCTCCGGCTAACCACTCAGGGGTTTTGAAGGCCGCCGTTGATGTTGCCATTGGCATGCGTTAACGTGTAAATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:109:2630:2754/2
+GTAGGTACCCCGTGTCGGCGAAGTATAGTTATCAGAATCACGCCATTTTACGAGTAAATCCAGCGCATGGCTTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:110:6269:6392/2
+GCTTTCTGCAAGTTAGACTGACTAACCGCAGATTTCCATAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:111:2601:2725/2
+TATCAGAATCACGCCATTTTACGAGTAAATCCAGCGCATGGCTTGTCTATACTTACCACCTTTAACGCTCCAGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:112:1271:1395/2
+CTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGAACGACCCTAAGTGTGTACGCAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:113:1954:2078/2
+CACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGGAAGAGCAAGGCTTATGAATTCCGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:114:8719:8842/2
+ACTCGGAAACTGTACCGCAGGGACAGGTTACGCAAGTTTACACAGGGTTGCCCCGTGACTTTCATGGAAGCGGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:115:3855:3980/2
+GAGAGGGGTTTAGCCACGCGGTAATTCTGCACGTGGGTATGACGTAGGTGTAGTATGAAACCAGTAAGTTGACTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:116:2140:2264/2
+AATACAACGGTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:117:2221:2344/2
+CCAATATGACCTAGTGCACGAGCCCTTTTCAGCATCCACCAATTCAAGTGCGCCTAATAGAGCTACTGCCAGGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:118:5428:5549/2
+GTGCAGTGTCAGAGTAGACATACACATACGATGACCCAATTACGCGCAAAGGTAACCAAGCCGCATAGGCGACACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:119:6779:6902/2
+AAGGACTCCCGTCCCTATCCCCATAAATTCAAGGTATGTACGGCAGCCGCGTGACTTTACAGATTTCTATCACGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:120:7254:7378/2
+ATAAAACCGAATCCAGGGATATAATTTCCGGTGCGCCATTCACGTACTAGTTCCCACCAATGACTGGTTGCCTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:121:3514:3638/2
+TATCAAAACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCGGATCCCCCTCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:122:219:342/2
+GTTAACGTCCGACTATCCACTTGCATGGGGCTAGATTCAGGCACTTTTACATTTTAAGACTGTTCGCGTGCACTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:123:4667:4789/2
+TGTAGACGATCTAGCTCCAGCGGATGACTATAGGACACGATAATACGTGCCTAACTTAACCGAAGACAAACCGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:124:8880:9004/2
+GGTATATTTAATATCCGTAGCCACTGTATAACGAATGCTTTAATAATACGGATCTAATCTCCGTTAACGGACAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:125:8510:8635/2
+CACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTACTATACAATGCAATCCAAGGTAGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:126:606:731/2
+AGAGAATGTCTCATTCACATGCAGTAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:127:4239:4362/2
+TCCAGAATCTGTGGCGAGCCTGCCTTGGCCAGACCGATTTAGATAAGATACCACTCTTCGTCCAATTCATTCGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:128:1630:1752/2
+TTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTGGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:129:2630:2754.dup.2/2
+GTAGGTACCCCGTGTCGGCGAAGTATAGTTATCAGAATCACGCCATTTTACGAGTAAATCCAGCGCATGGCTTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:130:9292:9415/2
+CGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGAACAACGATATTCGCAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:131:232:355/2
+GTCTTAGCTGAGAGTTAACGTCCGACTATCCACTTGCATGGGGCTAGATTCAGGCACTTTTACATTTTAAGACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:132:3633:3759/2
+GAAGTCTGGGAACAAGAGGAATGCAATTGGAATGCGGCCTCCGTCGGATGCAAATAGCGTACGATTTGTCATAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:133:4028:4152/2
+CTTAATCAGCTGATGGTGAAGGTCAAGGATGGCATATTCGCTGCTGGTCCCTTATGGTTTACAGGCTTCTGTGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:134:4765:4889/2
+GTTCCCGCGGATCCTCCAGGTACAGCACTGGGAGTTGACGCCGAACCCAGCGAATTTAGCCATACGTACACCAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:135:2946:3071/2
+GGTGGAGCAACTCTAGTATAAATTACTTGCCAGCATATCGCTCGGCAAGCTGACACCGGCGAACCATGATGCGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:136:2385:2509/2
+GAAGTCATGGTCAGTACACCGAGGGCAAAGGAAGTTCCCTGTGGCTGTTTGCGGTTCACGGGGGGTACTCACTTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:137:8367:8490/2
+AAGAGATGCATCATGCTTGATCGGCGGATGTTGACAAACTCTCACCTAGATTACCTTTAATATGGCTGTACCTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:138:8298:8423/2
+GTACCTACGAACTCTTATACAGCTCTCCGAATTTCCCTGCGTCAGGCATGATGTCGCGCCTCTGTCACTGATCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:139:5059:5183/2
+GGCTAACGACTGTGGTGACAGCTATCCCCGTCTACGGAATTCGGAGTAGAGCCCCGTAGCCGAATCGCGACGTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:140:3174:3296/2
+ATTAGAGCGCCATCTGTGGACCACCCGGGAAGAACGAGAGACCGTTGCAGATTCGACTTCTGCTCAGAACAAACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:141:5150:5275/2
+TCTCCACGCTAAACACTACCTCATAATGGGACCATGCCCGCGTAAAGTGGGGGCCGTTCAGGATTGCCGGTATTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:142:4375:4497/2
+GGCCTCTAAGCTTGTGTGCTTTGAATCATAGCCCGCTAATGAGCCGAGTTTGATGAGGTACGATCCTTGGTTTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:143:4357:4480/2
+GCTTTGAATCATAGCCCGCTAATGAGCCGAGTTTGATGAGGTACGATCCTTGGTTTCAGCTTTCGAGATCGCGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:144:9490:9613/2
+GTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCATCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:145:5326:5451/2
+AAGTCGTGATGCACTTTAAGGTGCATTGCACGGCAGGAGACCTCAACTAGCAACCGATTCGGTGTTGCCACTATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:146:53:176/2
+TTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGCATCAACCCGTTCTACCAGACTGTACGTGAAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:147:7481:7605/2
+CCTGACGGTCATTAACCCTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTACACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:148:6198:6322/2
+TGGTTTCTCCGGCTAACCACTCAGGGGTTTTGAAGGCCGCCGTTGATGTTGCCATTGGCATGCGTTAACGTGTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:149:4966:5089/2
+GAATCCGTTTCTATTCCCGCGGTAGTCTTAAAGGTACAAATAGACGAGGAGCCTAATCCCGGCCAGAAGCCTGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:150:2395:2520/2
+ACTACCTTATCGAAGTCATGGTCAGTACACCGAGGGCAAAGGAAGTTCCCTGTGGCTGTTTGCGGTTCACGGGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:151:9622:9745/2
+ATCCGAGCAAAATGGCGCCTCTATGGGCCCTTGAGCGTAAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:152:7099:7224/2
+CGCGTAGCAGTAGGAGTAACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCTATGTGGCGTTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:153:5202:5325/2
+CAGCACATCCGCCCGATGGGGACGAGGACGTTCAAGTATTTTTATGCGCGTCTCCACGCTAAACACTACCTCATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:154:6720:6843/2
+CAGATTTCTATCACGATTAGCGGCTAAGGTGATACTTTGGACCACAAGCCGACCCTGTTAGAGGTTTAGCGCGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:155:7095:7219/2
+AGCAGTAGGAGTAACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCTATGTGGCGTTATAGGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:156:8137:8260/2
+GGAAGCGACTCAGGCGTGGGCTTAAACACGACTATGGATCTATTGCTCACTTGCATCCGAACAATATAATGGTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:157:7140:7264/2
+GACATGGCCAGCTCAGACCGTAAACCCCTAATGACTTCGACGCGTAGCAGTAGGAGTAACTACCGAGACAAGACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:158:9254:9376/2
+ATTGTAGCGTGGGTCTTGAACAACGATATTCGCAAATAGGACAGGCCGGTACTACAACTCCTGACTGAACTTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:159:985:1110/2
+GAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:160:7029:7152/2
+TATAGGCCCACGGCCAGCCGTAGTAGTAGCTTGCCCCAGAATGTTTACCCGACTTCATGGTTATCGCCCTCCACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:161:3901:4023/2
+CCATAGATCGTGATTAGTTTTATGTAGATGGGTTGCGACTGTGGAGAGGGGTTTAGCCACGCGGTAATTCTGCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:162:3906:4028/2
+AGTATCCATAGATCGTGATTAGTTTTATGTAGATGGGTTGCGACTGTGGAGAGGGGTTTAGCCACGCGGTAATTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:163:3549:3674/2
+ACCTCGTGGAAAGCCGAGTTCTCGTGCATAAGATTTTATCAAAACAAATACGTGCACCTCTGCCGGCAATCGATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:164:1351:1476/2
+GTGAAAACGTTCTACGTGTTACTCCTAGCTCGAGAACGGGACGGTGGTCGCTAGTCTCGGGGAGCGACCCGTGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:165:2438:2560/2
+GCGGCCTAAAGGCGTTCCCTATGTTATTTTGTCCCACCAGACTACCTTATCGAAGTCATGGTCAGTACACCGAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:166:9296:9420/2
+AGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGAACAACGATATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:167:4299:4424/2
+CAGCTTTCGAGATCGCGAAATGCTGTAGCGGATAGAAGACCTTTGTGCCCCATGGAAGGCTGTCCAGAATCTGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:168:7756:7880/2
+AACCGGCTCCAAACCTCCTCCCCACTGTCTCCCAAAGTCAGACGTAGGACAGTGCCTATTGTCCGCAACGAGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:169:9051:9175/2
+CATACCCATAAGCTCACGGGTCCGCGGCGCATGGTAGCATCTGACGGGTGCTAAGCTATTGTTCCCCAGTAGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:170:4506:4629/2
+CCGCGTCTCAGGTGAAAACTCGTGTTGATTTCCTGGACTGGTAATTCCATGGAGATTTAAAAATTTAGGCAGCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:171:5050:5175/2
+ACTGTGGTGACAGCTATCCCCGTCTACGGAATTCGGAGTAGAGCCCCGTAGCCGAATCGCGACGTTGGAAGGGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:172:5133:5258/2
+ACCTCATAATGGGACCATGCCCGCGTAAAGTGGGGGCCGTTCAGGATTGCCGGTATTAGGCGCTGAGGCTGAATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:173:5467:5591/2
+TCATCGTGTCCTCCGCCAGCTGTTTCTTGCGCCTCAAGAACAGTGCAGTGTCAGAGTAGACATACACATACGATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:174:7253:7376/2
+AAAACCGAATCCAGGGATATAATTTCCGGTGCGCCATTCACGTACTAGTTCCCACCAATGACTGGTTGCCTCCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:175:6232:6357/2
+CCATAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTTCTCCGGCTAACCACTCAGGGGTTTTGAAGGCCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:176:2169:2292/2
+CCTAATAGAGCTACTGCCAGGGCGAGACAATACAACGGTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:177:6515:6637/2
+TGCTGGTGAAAACCTGTCTGGGCCGGGGTCTCCCAACTTAGCTCCATTATTAGTGTTACTCCGAGACTGATGTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:178:5584:5705/2
+TCTAGACACGATACGGCCTCGTAATACAGGTCAGTCAGAAAGATGGTATTGAATATAGCACCCTTAAATTCGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:179:1450:1573/2
+TATCGCGCCCGCGTGCATTGCCGGACCCGCCAAATTCCCTTTTGTCAGTTCGCGGACGTTGTGCAGGCCCGAGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:180:4781:4904/2
+GGACTATAAAAAGACGTTCCCGCGGATCCTCCAGGTACAGCACTGGGAGTTGACGCCGAACCCAGCGAATTTAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:181:8272:8396/2
+CGAATTTCCCTGCGTCAGGCATGATGTCGCGCCTCTGTCACTGATCGTTTCGCGATCCGCGACAATCAGAAGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:182:6245:6368/2
+ACCGCAGATTTCCATAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTTCTCCGGCTAACCACTCAGGGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:183:7966:8089/2
+GAGAACGCAGAGGCTACCGGCTATAAACCCTAGCAGTGGAAATACGTACTGGAGGTTGCCAGTGGCGCAATTAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:184:6744:6868/2
+TATGTACGGCAGCCGCGTGACTTTACAGATTTCTATCACGATTAGCGGCTAAGGTGATACTTTGGACCACAAGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:185:3567:3688/2
+TAGACTCTCATATAACCTCGTGGAAAGCCGAGTTCTCGTGCATAAGATTTTATCAAAACAAATACGTGCACCTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:186:6114:6238/2
+GGTTGCTCCCCTACTGTGGGACTTGCATACCTATTCATAATGCCGAATATGTCATATGGCCTAACGTGATGGGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:187:3423:3544/2
+CATAGCGGTGAAACCGGTATCCGTCCCTGGGACATTAAGACAGCAGAGTCGGAAAGAAGAGTTCACGGTCGCATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:188:9368:9492/2
+TCACTCGTGTTTGCTTTCGGTCGGGATGTCTTTCGAATCTGTACACACGGATGTTTTATCCATCGTAACGGAAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:189:3510:3632/2
+AACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCGGATCCCCCTCGTAGATCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:190:675:800/2
+CTTAATGTTTCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:191:6881:7005/2
+CACGTGTGCCCGATGCCGGTGGAGGAAGTGACGGTAGCGCCGGATGCAAGAATGTCCACACTACCCGCAAAACCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:192:8257:8382/2
+TCAGGCATGATGTCGCGCCTCTGTCACTGATCGTTTCGCGATCCGCGACAATCAGAAGTATATGTCCCTGGGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:193:462:586/2
+ATGACATCGAGGTACTAGCTGCGTGATGTCTGCCCCCCGTAAGGGTGCGATAGTTTCTTTTCTCCCCACGGCGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:194:65:187/2
+CGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGCATCAACCCGTTCTACCAGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:195:7758:7881/2
+CAACCGGCTCCAAACCTCCTCCCCACTGTCTCCCAAAGTCAGACGTAGGACAGTGCCTATTGTCCGCAACGAGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:196:6821:6946/2
+ACTACCCGCAAAACCTGTTCTCCATGATTCCGTACGCAAGCCGCAAGGACTCCCGTCCCTATCCCCATAAATTCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:197:1629:1756/2
+GGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:198:9074:9198/2
+TTGGACCTATGGCTCCTGGAAGACATACCCATAAGCTCACGGGTCCGCGGCGCATGGTAGCATCTGACGGGTGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:199:7427:7549/2
+CGATATAGCTATTTACACAGGTCTACACCCACTTCCCGGCGCCAGACGTCGGCGTCCGTACCCGAAGTTCCTATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:200:5944:6067/2
+TGTGACTCTGAAGCCCGCCAAGCAAGGAGCTTACAACATGGTCACTCCGCGGCTCACGTTATTAAGTCTATACATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:201:6422:6546/2
+ACCAGGAACGTAGTCAATACGTTACGTGTCCGGATGACGGTCCCCTACGCACTTACCGACGATCGTTGGCGATACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:202:4148:4271/2
+TACTATCACTCGTCAACTTCTATGGCGAGACGGATCAATGATAACACGAGCTTTACGTTGGAGTGTATATATATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:203:9402:9525/2
+CATGATGGGGCGCCGGACACGCCCCCCCGCACATCACTCGTGTTTGCTTTCGGTCGGGATGTCTTTCGAATCTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:204:9444:9569/2
+CATAAGTCCCACATTAAGCGTTGGGCATCTTGGCTACTCTCGCACATGATGGGGCGCCGGACACGCCCCCCCGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:205:1365:1488/2
+TTGAGATCTAGAGTGAAAACGTTCTACGTGTTACTCCTAGCTCGAGAACGGGACGGTGGTCGCTAGTCTCGGGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:206:9344:9469/2
+GGATGTCTTTCGAATCTGTACACACGGATGTTTTATCCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:207:2310:2433/2
+AGCTCTCTCGGGAACGAGTCGCGGGGTGTGTGAACAACTATCAAAGCGTCGAGATGTGGGGGTGACGGTATCCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:208:422:545/2
+AGGGTGCGATAGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGTTATGCGTTTTGCGTTCAGCTGGCCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:209:7891:8014/2
+ACTCCCAGGCCCAGTTGCGCAAGTAGTATGCCAGTTGGGTTCCCACTATAGCATTCGGAACCTGACCAGCGGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:210:7464:7588/2
+CTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTACACAGGTCTACACCCACTTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:211:2623:2747/2
+CCCCGTGTCGGCGAAGTATAGTTATCAGAATCACGCCATTTTACGAGTAAATCCAGCGCATGGCTTGTCTATACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:212:3612:3736/2
+CAATTGGAATGCGGCCTCCGTCGGATGCAAATAGCGTACGATTTGTCATAGACTCTCATATAACCTCGTGGAAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:213:8529:8652/2
+GTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTACTATACAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:214:1886:2010/2
+TTCCGTCTGTATTCGCCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:215:87:209/2
+TTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:216:6855:6979/2
+AGTGACGGTAGCGCCGGATGCAAGAATGTCCACACTACCCGCAAAACCTGTTCTCCATGATTCCGTACGCAAGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:217:1981:2104/2
+TAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:218:3629:3754/2
+CTGGGAACAAGAGGAATGCAATTGGAATGCGGCCTCCGTCGGATGCAAATAGCGTACGATTTGTCATAGACTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:219:7811:7935/2
+GGTTACTCAGTGTGGTCTTATCTGCTCATTGCTGATGTGCCATCGTCCTCTCTCCAACCGGCTCCAAACCTCCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:220:2349:2474/2
+TCCCTGTGGCTGTTTGCGGTTCACGGGGGGTACTCACTTTAAGCTCTCTCGGGAACGAGTCGCGGGGTGTGTGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:221:9605:9727/2
+CTCTATGGGCCCTTGAGCGTAAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:222:6788:6911/2
+GCAAGCCGCAAGGACTCCCGTCCCTATCCCCATAAATTCAAGGTATGTACGGCAGCCGCGTGACTTTACAGATTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:223:7834:7957/2
+GAACCTGACCAGCGGCATTCCTGGTTACTCAGTGTGGTCTTATCTGCTCATTGCTGATGTGCCATCGTCCTCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:224:4257:4381/2
+TGTGCCCCATGGAAGGCTGTCCAGAATCTGTGGCGAGCCTGCCTTGGCCAGACCGATTTAGATAAGATACCACTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:225:2886:3010/2
+AACCATGATGCGGGGCCGGACGGGGGACAAACTTTTGTGGAGTTAATGAACGGGCCGTCGCCCCAAGTCTACTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:226:9306:9428/2
+GTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGAACAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:227:367:491/2
+GTTTTGCGTTCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:228:3997:4121/2
+GCATATTCGCTGCTGGTCCCTTATGGTTTACAGGCTTCTGTGCGGATAGGTTCCGTAAGAGGTGAAACGCTTTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:229:1477:1601/2
+CGGATAAACGATACGTGGTATACCAGGATATCGCGCCCGCGTGCATTGCCGGACCCGCCAAATTCCCTTTTGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:230:6711:6836.dup.2/2
+CTATCACGATTAGCGGCTAAGGTGATACTTTGGACCACAAGCCGACCCTGTTAGAGGTTTAGCGCGATTTGTATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:231:5325:5449/2
+GTCGTGATGCACTTTAAGGTGCATTGCACGGCAGGAGACCTCAACTAGCAACCGATTCGGTGTTGCCACTATAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:232:720:843/2
+TCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATGTTTCTGCCAAGTGTTTCGCCGAAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:233:4963:5087/2
+ATCCGTTTCTATTCCCGCGGTAGTCTTAAAGGTACAAATAGACGAGGAGCCTAATCCCGGCCAGAAGCCTGATTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:234:7317:7440/2
+TAACTAGTGATGTTCGAGCCAGATACGCTGCGTAAATACATATCTGAGAACGGGCGTACGACATAAAACCGAATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:235:2930:3053/2
+TAAATTACTTGCCAGCATATCGCTCGGCAAGCTGACACCGGCGAACCATGATGCGGGGCCGGACGGGGGACAAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:236:5600:5723/2
+CTATGACTTCACTATAAGTCTAGACACGATACGGCCTCGTAATACAGGTCAGTCAGAAAGATGGTATTGAATATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:237:8348:8472/2
+GATCGGCGGATGTTGACAAACTCTCACCTAGATTACCTTTAATATGGCTGTACCTACGAACTCTTATACAGCTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:238:7477:7603/2
+TGACGGTCATTAACCCTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTACACAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:239:4407:4530/2
+CGAACACACGGATCCGAGCTAGATAGTATGCACGGCCTCTAAGCTTGTGTGCTTTGAATCATAGCCCGCTAATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:240:3840:3963/2
+GCGGTAATTCTGCACGTGGGTATGACGTAGGTGTAGTATGAAACCAGTAAGTTGACTATAGACCGAGACGTTAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:241:2231:2354/2
+TAGCATCGAACCAATATGACCTAGTGCACGAGCCCTTTTCAGCATCCACCAATTCAAGTGCGCCTAATAGAGCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:242:2529:2652/2
+TCTTGTGCTGAGGCCGTTCGAACATGAGACACACGCAAGCAATTTGAACATAATTAACGAAAATCAGTAATAGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:243:7427:7550/2
+CCGATATAGCTATTTACACAGGTCTACACCCACTTCCCGGCGCCAGACGTCGGCGTCCGTACCCGAAGTTCCTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:244:2550:2673/2
+TTACCACCTTTAACGCTCCAGTCTTGTGCTGAGGCCGTTCGAACATGAGACACACGCAAGCAATTTGAACATAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:245:7122:7244/2
+TAAACCCCTAATGACTTCGACGCGTAGCAGTAGGAGTAACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:246:159:283/2
+CTGTTCGCGTGCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:247:271:395/2
+GAAGTCGTCTAGAGACAGTGTCAGACTGAATGGCCCCTCAGTCTTAGCTGAGAGTTAACGTCCGACTATCCACTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:248:7269:7392/2
+AACGGGCGTACGACATAAAACCGAATCCAGGGATATAATTTCCGGTGCGCCATTCACGTACTAGTTCCCACCAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:249:1818:1943/2
+ATCCACCAAAAAATACCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:250:924:1048/2
+GTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCATAGGCTCGGACGATGACACGTGCCTTAGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:251:6019:6142/2
+CCACCTCAGACAATCTCCGTGCGGAACGATAGGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:252:4544:4666/2
+CAACAATGTGCTTGCTCTGGGGACCACTGGCGTCATGCCGCGTCTCAGGTGAAAACTCGTGTTGATTTCCTGGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:253:3254:3376/2
+GGGGTGAAGTCTTTAACTGCAATTGCCAATCGGCAGAAACGTCGCATTGTGCATGGTGTCTTCATAAACCCCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:254:8205:8329/2
+AGAAGTATATGTCCCTGGGCCCTCAGCTATACGGGCTTGTAAATGCTGTCACGTACTTGTCACAATCGCGGAAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:255:6196:6319/2
+TTTCTCCGGCTAACCACTCAGGGGTTTTGAAGGCCGCCGTTGATGTTGCCATTGGCATGCGTTAACGTGTAAATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:256:8427:8550/2
+GGCGAGTGGACGTTACTCTAGAAAGCAATACTCACTGAGAGTCTTGGACAACAACCTATTAAGAGATGCATCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:257:6493:6617/2
+GGCCGGGGTCTCCCAACTTAGCTCCATTATTAGTGTTACTCCGAGACTGATGTATGCCTATACATTATCCTACCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:258:7191:7316/2
+ACTGGTTGCCTCCGTATCGGTACCGGACCGAGATTACCAAGCAGCGTTCGGTGACATGGCCAGCTCAGACCGTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:259:1264:1389/2
+GAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:260:1108:1233/2
+CCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGCGTCACTGCCCAACCGAGGTTCATGAAACCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:261:7529:7653/2
+TATTAAGGCTAGCGTAAATATAATATTAGCATTATTGTCTGTATCTCGCCTGACGGTCATTAACCCTTCATCTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:262:1889:2013/2
+GAATTCCGTCTGTATTCGCCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:263:8914:9036/2
+CGTCCTTCGCTCCCCTTTACAGTCGGCCTGTCGGTATATTTAATATCCGTAGCCACTGTATAACGAATGCTTTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:264:8389:8512/2
+GAGTCTTGGACAACAACCTATTAAGAGATGCATCATGCTTGATCGGCGGATGTTGACAAACTCTCACCTAGATTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:265:2617:2741/2
+GTCGGCGAAGTATAGTTATCAGAATCACGCCATTTTACGAGTAAATCCAGCGCATGGCTTGTCTATACTTACCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:266:9489:9613/2
+GTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCATCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:267:3947:4072/2
+GTTCCGTAAGAGGTGAAACGCTTTTAGTGATTGCAGGGCAATCGAGTATCCATAGATCGTGATTAGTTTTATGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:268:2309:2432/2
+GCTCTCTCGGGAACGAGTCGCGGGGTGTGTGAACAACTATCAAAGCGTCGAGATGTGGGGGTGACGGTATCCCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:269:1723:1845/2
+AAGTATCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAGGTCGTGGGCTAACGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:270:7322:7445/2
+CGATGTAACTAGTGATGTTCGAGCCAGATACGCTGCGTAAATACATATCTGAGAACGGGCGTACGACATAAAACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:271:1649:1772/2
+GAGTTAGTCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:272:7215:7337/2
+ACGTACTAGTTCCCACCAATGACTGGTTGCCTCCGTATCGGTACCGGACCGAGATTACCAAGCAGCGTTCGGTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:273:2685:2809/2
+GTGCATTGTTGATACGGATTTAACTACCCTTGTGCGACTCTGGCCGTGATCCCACGTAGGTACCCCGTGTCGGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:274:6667:6792/2
+ACCCTGTTAGAGGTTTAGCGCGATTTGTATTACTGTCCACTCGGAGGTATTTACGTCAGAGTCATTCTTATGCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:275:6586:6708/2
+CATATCGGTGGGTTGAGCGGCGCCACCGTGGGGCTAGGGTAGAAGGATAGCCAGTGTGCCGGGTCGGTCCCTGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:276:5887:6012/2
+ACGTTATTAAGTCTATACATGATTCTGAGCATAAAACGTCATTACCTTAGTAGGGGATAGATACAAACTCTGACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:277:2619:2745/2
+CCGTGTCGGCGAAGTATAGTTATCAGAATCACGCCATTTTACGAGTAAATCCAGCGCATGGCTTGTCTATACTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:278:7078:7203/2
+ACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCTATGTGGCGTTATAGGCCCACGGCCAGCCGTAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:279:1230:1352/2
+AAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGATCGGGCATGATGGACAACCACCTGTACTCTTGGTTAGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:280:5504:5626/2
+TCGGCGGGGCCTCTACCCAGACGAAACCCGGCCCCTCATCGTGTCCTCCGCCAGCTGTTTCTTGCGCCTCAAGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:281:9018:9141/2
+TAGCATCTGACGGGTGCTAAGCTATTGTTCCCCAGTAGACATAGGAGGTCATTGCCGGTCTCATAAAGTGACCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:282:9531:9653/2
+TTGGTGAGAATCCACACGAACTCTCATCTGCTATGCCAAGGTTCCCATATTCAATACAACGGGGTATACGCGACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:283:7634:7759/2
+AGAGCGCTGACAATCAGGGTATTTTGGGGAGGACATCAACCTACAAGTATTGCCGCGATTCGAAGATCCGTGGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:284:1994:2119/2
+GGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:285:5259:5383/2
+CACTATAATACGGACACCATTCCGGGGAACTAGGTGACTGCACTATTAACTTTGTGGGCAGCACATCCGCCCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:286:2754:2877/2
+ACGTAAGATTCTCGCCTCGGCCCGCAAGACATCGCAACGCCTGGATGTGTATCCCTCAAAGCAACGTAGTGCATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:287:3166:3291/2
+AGCGCCATCTGTGGACCACCCGGGAAGAACGAGAGACCGTTGCAGATTCGACTTCTGCTCAGAACAAACGTGATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:288:833:958/2
+ATTCCAAAGAACCGGCCGTAACCACCGCATTCTTTCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:289:489:612/2
+TGAGTGTGGAACATAGGAGTCAGATAATGACATCGAGGTACTAGCTGCGTGATGTCTGCCCCCCGTAAGGGTGCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:290:870:993/2
+GATGACACGTGCCTTAGCCCTGTGGGCGGTGAATTATTCCAAAGAACCGGCCGTAACCACCGCATTCTTTCTGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:291:9783:9905/2
+AGTCTGAAGCATAAAAATCGTGTGTGGAGTGAAATCGGGAAAACGAAATGATACTTGATACAGCTTGCGGACTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:292:4859:4981/2
+GAGCGCGAGTACCAATTGTGGTCCTCGTCTTTGATAGTATTAGCAGGACGCCTAGTCTGCCTAAAGAGTGACATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:293:1013:1138/2
+TGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:294:6283:6409/2
+TAGTCCTTGCTATACGAGCTTTCTGCAAGTTAGACTGACTAACCGCAGATTTCCATAGTAACTAAATGGCCGAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:295:9644:9766/2
+TCCCTGTTAAGGACACCACGAATCCGAGCAAAATGGCGCCTCTATGGGCCCTTGAGCGTAAAAACCCGTCAGATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:296:351:474/2
+CCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:297:5168:5292/2
+AAGTATTTTTATGCGCGTCTCCACGCTAAACACTACCTCATAATGGGACCATGCCCGCGTAAAGTGGGGGCCGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:298:7011:7135/2
+CCGTAGTAGTAGCTTGCCCCAGAATGTTTACCCGACTTCATGGTTATCGCCCTCCACTTGCGTCGTATGTACTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:299:3005:3127/2
+GGCGTACTCTAGTACACCGGAACGCCGGGCGTATCAATACTTAGGGAAAGTGGATCGGTGGAGCAACTCTAGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:300:9606:9729/2
+GCCTCTATGGGCCCTTGAGCGTAAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:301:2768:2892/2
+ATGCTTGGCTACGGCACGTAAGATTCTCGCCTCGGCCCGCAAGACATCGCAACGCCTGGATGTGTATCCCTCAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:302:2356:2479/2
+GAAGTTCCCTGTGGCTGTTTGCGGTTCACGGGGGGTACTCACTTTAAGCTCTCTCGGGAACGAGTCGCGGGGTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:303:1268:1390/2
+GGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:304:7843:7967/2
+ATAGCATTCGGAACCTGACCAGCGGCATTCCTGGTTACTCAGTGTGGTCTTATCTGCTCATTGCTGATGTGCCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:305:6230:6354/2
+TAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTTCTCCGGCTAACCACTCAGGGGTTTTGAAGGCCGCCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:306:3849:3972/2
+TTTAGCCACGCGGTAATTCTGCACGTGGGTATGACGTAGGTGTAGTATGAAACCAGTAAGTTGACTATAGACCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:307:2105:2227/2
+CGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATATCTCCGAGCATGACGAACATAGCTTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:308:4408:4533/2
+TTACGAACACACGGATCCGAGCTAGATAGTATGCACGGCCTCTAAGCTTGTGTGCTTTGAATCATAGCCCGCTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:309:9315:9441/2
+TGTTTTATCCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:310:666:791/2
+TCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTCATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:311:4873:4997/2
+CGGACCCTTATTTCAGGAGCGCGAGTACCAATTGTGGTCCTCGTCTTTGATAGTATTAGCAGGACGCCTAGTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:312:7191:7314/2
+TGGTTGCCTCCGTATCGGTACCGGACCGAGATTACCAAGCAGCGTTCGGTGACATGGCCAGCTCAGACCGTAAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:313:7484:7609/2
+CTCGCCTGACGGTCATTAACCCTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:314:2577:2701/2
+GTAAATCCAGCGCATGGCTTGTCTATACTTACCACCTTTAACGCTCCAGTCTTGTGCTGAGGCCGTTCGAACATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:315:862:985/2
+GTGCCTTAGCCCTGTGGGCGGTGAATTATTCCAAAGAACCGGCCGTAACCACCGCATTCTTTCTGGTGCAAGCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:316:5318:5443/2
+ATGCACTTTAAGGTGCATTGCACGGCAGGAGACCTCAACTAGCAACCGATTCGGTGTTGCCACTATAATACGGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:317:3938:4062/2
+AGGTGAAACGCTTTTAGTGATTGCAGGGCAATCGAGTATCCATAGATCGTGATTAGTTTTATGTAGATGGGTTGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:318:7294:7418/2
+ATACGCTGCGTAAATACATATCTGAGAACGGGCGTACGACATAAAACCGAATCCAGGGATATAATTTCCGGTGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:319:6188:6312/2
+GGCTAACCACTCAGGGGTTTTGAAGGCCGCCGTTGATGTTGCCATTGGCATGCGTTAACGTGTAAATTGGCAAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:320:9257:9380/2
+TCCGATTGTAGCGTGGGTCTTGAACAACGATATTCGCAAATAGGACAGGCCGGTACTACAACTCCTGACTGAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:321:9464:9588/2
+ATACGCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCATCTTGGCTACTCTCGCACATGATGGGGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:322:5634:5758/2
+CGGGCTGCGATTGCTTTCACTGGCACTTAAATGGTCTATGACTTCACTATAAGTCTAGACACGATACGGCCTCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:323:9329:9451/2
+TACACACGGATGTTTTATCCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:324:667:791/2
+TCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTCATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:325:5406:5528/2
+ACACATACGATGACCCAATTACGCGCAAAGGTAACCAAGCCGCATAGGCGACACCGTACCCCTTGGCTAACGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:326:1872:1995/2
+CCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:327:4337:4460/2
+AATGAGCCGAGTTTGATGAGGTACGATCCTTGGTTTCAGCTTTCGAGATCGCGAAATGCTGTAGCGGATAGAAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:328:6859:6982/2
+GGAAGTGACGGTAGCGCCGGATGCAAGAATGTCCACACTACCCGCAAAACCTGTTCTCCATGATTCCGTACGCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:329:9573:9698/2
+TCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTTGGTGAGAATCCACACGAACTCTCATCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:330:716:840/2
+TCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATGTTTCTGCCAAGTGTTTCGCCGAAATCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:331:5280:5405/2
+CTAGCAACCGATTCGGTGTTGCCACTATAATACGGACACCATTCCGGGGAACTAGGTGACTGCACTATTAACTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:332:9107:9231/2
+TATTTATGGTAATGTTCCTGAGATAACCGTGGCTTGGACCTATGGCTCCTGGAAGACATACCCATAAGCTCACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:333:954:1079/2
+ATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:334:5527:5650/2
+TAGCACCCTTAAATTCGCATTCTTTCGGCGGGGCCTCTACCCAGACGAAACCCGGCCCCTCATCGTGTCCTCCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:335:149:273/2
+GCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:336:6248:6372/2
+ACTAACCGCAGATTTCCATAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTTCTCCGGCTAACCACTCAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:337:9563:9686/2
+GGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTTGGTGAGAATCCACACGAACTCTCATCTGCTATGCCAAGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:338:419:543/2
+GGTGCGATAGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGTTATGCGTTTTGCGTTCAGCTGGCCGGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:339:2281:2405/2
+TGTGAACAACTATCAAAGCGTCGAGATGTGGGGGTGACGGTATCCCAGGCTTAGCATCGAACCAATATGACCTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:340:5980:6102/2
+CCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGACTCTGAAGCCCGCCAAGCAAGGAGCTTACAACATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:341:4416:4540/2
+GTTTAGATTACGAACACACGGATCCGAGCTAGATAGTATGCACGGCCTCTAAGCTTGTGTGCTTTGAATCATAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:342:8091:8215/2
+CTCACTTGCATCCGAACAATATAATGGTAGACTAAAGCTTGATAATTTTGTCACAACAATAACCAAGCGCGATCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:343:1765:1888/2
+GAAAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:344:7038:7162/2
+TATGTGGCGTTATAGGCCCACGGCCAGCCGTAGTAGTAGCTTGCCCCAGAATGTTTACCCGACTTCATGGTTATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:345:1055:1179/2
+AACCGAGGTTCATGAAACCCGGAGACCGAGCCTGAATGTGATGCGGCTACCTCACGTGATGGAGGGGACGAAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:346:5922:6047/2
+AGCAAGGAGCTTACAACATGGTCACTCCGCGGCTCACGTTATTAAGTCTATACATGATTCTGAGCATAAAACGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:347:6454:6576/2
+CGAGACTGATGTATGCCTATACATTATCCTACCAGGAACGTAGTCAATACGTTACGTGTCCGGATGACGGTCCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:348:5737:5861/2
+CTGTAAGGGTACGTTTTGGACCGTGTTACTGCCCCGGGCGTTCGTTGTTAGCCCCCTAAACTGGGGGGCCGGTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:349:532:657/2
+ATCGCAGGTCTTAGAACCCCTAATGCCTCCAAGCCAACTTCCGACTGAGTGTGGAACATAGGAGTCAGATAATGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:350:6968:7091/2
+TATCGCCCTCCACTTGCGTCGTATGTACTCGGCCTCAGTTGGTTCTGCTCTCACTAAAGGATCAGTCGCTGCCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:351:1027:1151/2
+AGCCTGAATGTGATGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:352:3228:3352/2
+GCCAATCGGCAGAAACGTCGCATTGTGCATGGTGTCTTCATAAACCCCGATGGGTAATTAGAGCGCCATCTGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:353:386:509/2
+TTCGTCAGTCTGTTATGCGTTTTGCGTTCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:354:7104:7228/2
+TCGACGCGTAGCAGTAGGAGTAACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCTATGTGGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:355:2795:2919/2
+TCAGACGTAGCCCTCACGTCCAATCCTATGCTTGGCTACGGCACGTAAGATTCTCGCCTCGGCCCGCAAGACATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:356:8422:8543/2
+GGACGTTACTCTAGAAAGCAATACTCACTGAGAGTCTTGGACAACAACCTATTAAGAGATGCATCATGCTTGATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:357:337:462/2
+AACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGATTGGAAGTCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:358:5623:5747/2
+TGCTTTCACTGGCACTTAAATGGTCTATGACTTCACTATAAGTCTAGACACGATACGGCCTCGTAATACAGGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:359:6484:6608/2
+CTCCCAACTTAGCTCCATTATTAGTGTTACTCCGAGACTGATGTATGCCTATACATTATCCTACCAGGAACGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:360:3529:3651/2
+GTGCATAAGATTTTATCAAAACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:361:1302:1425/2
+TAGTCTCGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:362:8306:8431/2
+ATATGGCTGTACCTACGAACTCTTATACAGCTCTCCGAATTTCCCTGCGTCAGGCATGATGTCGCGCCTCTGTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:363:1497:1621/2
+CACAAGGGAAGTTACTCTAACGGATAAACGATACGTGGTATACCAGGATATCGCGCCCGCGTGCATTGCCGGACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:364:2232:2352/2
+GCATCGAACCAATATGACCTAGTGCACGAGCCCTTTTCAGCATCCACCAATTCAAGTGCGCCTAATAGAGCTACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:365:6328:6452/2
+GACAACATCGATAAATCTTTGGAATATTGGCCCGAGAGACCTATAGTCCTTGCTATACGAGCTTTCTGCAAGTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:366:1739:1862/2
+CACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:367:5626:5750/2
+GATTGCTTTCACTGGCACTTAAATGGTCTATGACTTCACTATAAGTCTAGACACGATACGGCCTCGTAATACAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:368:6945:7070/2
+TATGTACTCGGCCTCAGTTGGTTCTGCTCTCACTAAAGGATCAGTCGCTGCCTTCCTAGGAACAACACGTGTGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:369:5871:5996/2
+ACATGATTCTGAGCATAAAACGTCATTACCTTAGTAGGGGATAGATACAAACTCTGACCTTAGTTGGGAGTCGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:370:9748:9873/2
+AATCGGGAAAACGAAATGATACTTGATACAGCTTGCGGACTGATCCACTTACCTACAAAGGGGGAGACTATTAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:371:3527:3649/2
+GCATAAGATTTTATCAAAACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:372:9058:9182/2
+TGGAAGACATACCCATAAGCTCACGGGTCCGCGGCGCATGGTAGCATCTGACGGGTGCTAAGCTATTGTTCCCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:373:4107:4230/2
+TAACACGAGCTTTACGTTGGAGTGTATATATATGAGAGTTAACGCGCAGTCATCAAACCTATCGAGGCAGTGCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:374:5592:5716/2
+TTCACTATAAGTCTAGACACGATACGGCCTCGTAATACAGGTCAGTCAGAAAGATGGTATTGAATATAGCACCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:375:359:482/2
+TCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:376:5685:5810/2
+CCCCCTAAACTGGGGGGCCGGTGCTACGGGATGGATCTAGTTTACAGAGTATCGGGCTGCGATTGCTTTCACTGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:377:2027:2152/2
+AGGGTTCAATGTATCAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:378:8492:8615/2
+TTAGATTCTGCAGAAAGCTAGTATGGCTTACTATACAATGCAATCCAAGGTAGGCCTGACCCCTAGGCGAGTGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:379:8176:8301/2
+ATACGGGCTTGTAAATGCTGTCACGTACTTGTCACAATCGCGGAAGCGACTCAGGCGTGGGCTTAAACACGACTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:380:7354:7477/2
+ATACTCCACGTCCCTATCGGTTCATGCGCCCTCGATGTAACTAGTGATGTTCGAGCCAGATACGCTGCGTAAATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:381:518:643/2
+AACCCCTAATGCCTCCAAGCCAACTTCCGACTGAGTGTGGAACATAGGAGTCAGATAATGACATCGAGGTACTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:382:3251:3373/2
+GTGAAGTCTTTAACTGCAATTGCCAATCGGCAGAAACGTCGCATTGTGCATGGTGTCTTCATAAACCCCGATGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:383:4548:4672/2
+AAAATCCAACAATGTGCTTGCTCTGGGGACCACTGGCGTCATGCCGCGTCTCAGGTGAAAACTCGTGTTGATTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:384:5451:5574/2
+AGCTGTTTCTTGCGCCTCAAGAACAGTGCAGTGTCAGAGTAGACATACACATACGATGACCCAATTACGCGCAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:385:6435:6558/2
+ATACATTATCCTACCAGGAACGTAGTCAATACGTTACGTGTCCGGATGACGGTCCCCTACGCACTTACCGACGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:386:1485:1608/2
+ACTCTAACGGATAAACGATACGTGGTATACCAGGATATCGCGCCCGCGTGCATTGCCGGACCCGCCAAATTCCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:387:7428:7552/2
+AACCGATATAGCTATTTACACAGGTCTACACCCACTTCCCGGCGCCAGACGTCGGCGTCCGTACCCGAAGTTCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:388:3903:4026/2
+TATCCATAGATCGTGATTAGTTTTATGTAGATGGGTTGCGACTGTGGAGAGGGGTTTAGCCACGCGGTAATTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:389:5988:6111/2
+GGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGACTCTGAAGCCCGCCAAGCAAGGAGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:390:1840:1962/2
+CTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:391:1326:1450/2
+AGCTCGAGAACGGGACGGTGGTCGCTAGTCTCGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:392:4572:4696/2
+CTTTACCTTCCGTGGCTTGGCATGAAAATCCAACAATGTGCTTGCTCTGGGGACCACTGGCGTCATGCCGCGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:393:9710:9834/2
+CTGATCCACTTACCTACAAAGGGGGAGACTATTAAGACCGTCTGTAAAAATAGCATTTTGCGGCGTGGTCCCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:394:3509:3631/2
+ACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCGGATCCCCCTCGTAGATCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:395:5171:5295/2
+TTCAAGTATTTTTATGCGCGTCTCCACGCTAAACACTACCTCATAATGGGACCATGCCCGCGTAAAGTGGGGGCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:396:8559:8681/2
+AATGGGGATTGCCTGTCACCCAGGAATCCGTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:397:7654:7778/2
+TATATGGTACGAGGTCCCCAGAGCGCTGACAATCAGGGTATTTTGGGGAGGACATCAACCTACAAGTATTGCCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:398:3687:3811/2
+ACACTGTATTCTACACCCGGGGTCAGACACCGTAGTCTTATCCTAACCCTGAGAAGTCTGGGAACAAGAGGAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:399:4253:4376/2
+CCCATGGAAGGCTGTCCAGAATCTGTGGCGAGCCTGCCTTGGCCAGACCGATTTAGATAAGATACCACTCTTCGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:400:7465:7590/2
+CCCTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTACACAGGTCTACACCCACTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:401:8336:8461/2
+GTTGACAAACTCTCACCTAGATTACCTTTAATATGGCTGTACCTACGAACTCTTATACAGCTCTCCGAATTTCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:402:618:741/2
+AGAACGCAAGAGAGAATGTCTCATTCACATGCAGTAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:403:128:254/2
+TTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:404:1281:1406/2
+GTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGAACGACCCTAAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:405:3955:4079/2
+CGGATAGGTTCCGTAAGAGGTGAAACGCTTTTAGTGATTGCAGGGCAATCGAGTATCCATAGATCGTGATTAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:406:8061:8185/2
+ACTAAAGCTTGATAATTTTGTCACAACAATAACCAAGCGCGATCAGGGCTCCAGATTAACGATGACACCACAACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:407:6374:6498/2
+GCACTTACCGACGATCGTTGGCGATACACTGTCTCCATGTCGATTGGACAACATCGATAAATCTTTGGAATATTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:408:919:1043/2
+GCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCATAGGCTCGGACGATGACACGTGCCTTAGCCCTGTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:409:4474:4597/2
+CTGGACTGGTAATTCCATGGAGATTTAAAAATTTAGGCAGCCGATTAAGTCTGCGGCGTTTAGATTACGAACACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:410:1267:1391/2
+CGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:411:3157:3281/2
+GTGGACCACCCGGGAAGAACGAGAGACCGTTGCAGATTCGACTTCTGCTCAGAACAAACGTGATTAGAGTCCAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:412:965:1089/2
+TTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:413:6034:6156/2
+GTCAACGGACGAGTCCACCTCAGACAATCTCCGTGCGGAACGATAGGACTTACCCCTCCTTTTATTTCTCCCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:414:7642:7764/2
+TCCCCAGAGCGCTGACAATCAGGGTATTTTGGGGAGGACATCAACCTACAAGTATTGCCGCGATTCGAAGATCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:415:1002:1126/2
+ACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:416:6781:6906/2
+CCGCAAGGACTCCCGTCCCTATCCCCATAAATTCAAGGTATGTACGGCAGCCGCGTGACTTTACAGATTTCTATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:417:671:795/2
+TGTTTCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:418:1778:1901/2
+CACGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:419:7956:8079/2
+AGGCTACCGGCTATAAACCCTAGCAGTGGAAATACGTACTGGAGGTTGCCAGTGGCGCAATTAAGACTCCCAGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:420:526:649/2
+TCTTAGAACCCCTAATGCCTCCAAGCCAACTTCCGACTGAGTGTGGAACATAGGAGTCAGATAATGACATCGAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:421:4391:4515/2
+GAGCTAGATAGTATGCACGGCCTCTAAGCTTGTGTGCTTTGAATCATAGCCCGCTAATGAGCCGAGTTTGATGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:422:6718:6843/2
+CAGATTTCTATCACGATTAGCGGCTAAGGTGATACTTTGGACCACAAGCCGACCCTGTTAGAGGTTTAGCGCGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:423:9719:9844/2
+AGCTTGCGGACTGATCCACTTACCTACAAAGGGGGAGACTATTAAGACCGTCTGTAAAAATAGCATTTTGCGGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:424:730:852/2
+TACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATGTTTCTGCCAAGTGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:425:3806:3930/2
+TAGTATGAAACCAGTAAGTTGACTATAGACCGAGACGTTAGCCTATACGAGACAAGGGATTACACCCGATATTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:426:9024:9150/2
+GGCGCATGGTAGCATCTGACGGGTGCTAAGCTATTGTTCCCCAGTAGACATAGGAGGTCATTGCCGGTCTCATAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:427:4435:4556/2
+CGATTAAGTCTGCGGCGTTTAGATTACGAACACACGGATCCGAGCTAGATAGTATGCACGGCCTCTAAGCTTGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:428:6465:6589/2
+ATTAGTGTTACTCCGAGACTGATGTATGCCTATACATTATCCTACCAGGAACGTAGTCAATACGTTACGTGTCCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:429:8630:8753/2
+CACAAGTTAGCGTCATCGAAGATTTCTGGTAGTAAGGTTGCGTGGGCAGAGCTGACAGTAGAAAATATAACAAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:430:8424:8548/2
+CGAGTGGACGTTACTCTAGAAAGCAATACTCACTGAGAGTCTTGGACAACAACCTATTAAGAGATGCATCATGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:431:4528:4650/2
+CTGGGGACCACTGGCGTCATGCCGCGTCTCAGGTGAAAACTCGTGTTGATTTCCTGGACTGGTAATTCCATGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:432:8541:8664/2
+ACCCAGGAATCCGTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:433:6949:7071/2
+GTATGTACTCGGCCTCAGTTGGTTCTGCTCTCACTAAAGGATCAGTCGCTGCCTTCCTAGGAACAACACGTGTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:434:830:951/2
+AGAACCGGCCGTAACCACCGCATTCTTTCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:435:9778:9902/2
+CTGAAGCATAAAAATCGTGTGTGGAGTGAAATCGGGAAAACGAAATGATACTTGATACAGCTTGCGGACTGATCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:436:6955:7078/2
+TTGCGTCGTATGTACTCGGCCTCAGTTGGTTCTGCTCTCACTAAAGGATCAGTCGCTGCCTTCCTAGGAACAACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:437:8239:8363/2
+TCTGTCACTGATCGTTTCGCGATCCGCGACAATCAGAAGTATATGTCCCTGGGCCCTCAGCTATACGGGCTTGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:438:5612:5734/2
+ACTTAAATGGTCTATGACTTCACTATAAGTCTAGACACGATACGGCCTCGTAATACAGGTCAGTCAGAAAGATGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:439:3949:4072/2
+GTTCCGTAAGAGGTGAAACGCTTTTAGTGATTGCAGGGCAATCGAGTATCCATAGATCGTGATTAGTTTTATGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:440:7564:7690/2
+GTGGATATCATCGGTGAGTGAGGGTACAACGGATGACTATTAAGGCTAGCGTAAATATAATATTAGCATTATTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:441:7154:7279/2
+CAAGCAGCGTTCGGTGACATGGCCAGCTCAGACCGTAAACCCCTAATGACTTCGACGCGTAGCAGTAGGAGTAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:442:6010:6133/2
+ACAATCTCCGTGCGGAACGATAGGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGACTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:443:1667:1791/2
+ACAAGGTCGTGGGCTAACGGAGTTAGTCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:444:237:360/2
+CCTCAGTCTTAGCTGAGAGTTAACGTCCGACTATCCACTTGCATGGGGCTAGATTCAGGCACTTTTACATTTTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:445:5734:5856/2
+AGGGTACGTTTTGGACCGTGTTACTGCCCCGGGCGTTCGTTGTTAGCCCCCTAAACTGGGGGGCCGGTGCTACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:446:8855:8979/2
+GTATAACGAATGCTTTAATAATACGGATCTAATCTCCGTTAACGGACAGTGAGAAAACATGATCAATCGAAAGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:447:7096:7220/2
+TAGCAGTAGGAGTAACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCTATGTGGCGTTATAGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:448:3198:3323/2
+TGGTGTCTTCATAAACCCCGATGGGTAATTAGAGCGCCATCTGTGGACCACCCGGGAAGAACGAGAGACCGTTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:449:9161:9283/2
+CTTGCAGTATCATTGGTTTCCGCAGTCTACCCGTGTCATAGTGATCGCTAGATATTTATGGTAATGTTCCTGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:450:3072:3196/2
+CACCACCTATAGCATCAACTGTCCTGTGATCAGAGGCTCATTTAGTTTGTTGTATGCCCAACTCATTGTGGCGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:451:7304:7426/2
+CGAGCCAGATACGCTGCGTAAATACATATCTGAGAACGGGCGTACGACATAAAACCGAATCCAGGGATATAATTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:452:1641:1765/2
+TCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:453:709:833/2
+CCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATGTTTCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:454:5190:5314/2
+CCCGATGGGGACGAGGACGTTCAAGTATTTTTATGCGCGTCTCCACGCTAAACACTACCTCATAATGGGACCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:455:1015:1138/2
+TGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:456:6470:6594/2
+CCATTATTAGTGTTACTCCGAGACTGATGTATGCCTATACATTATCCTACCAGGAACGTAGTCAATACGTTACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:457:1361:1484/2
+GATCTAGAGTGAAAACGTTCTACGTGTTACTCCTAGCTCGAGAACGGGACGGTGGTCGCTAGTCTCGGGGAGCGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:458:1317:1440/2
+CGGGACGGTGGTCGCTAGTCTCGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:459:9645:9767/2
+GTCCCTGTTAAGGACACCACGAATCCGAGCAAAATGGCGCCTCTATGGGCCCTTGAGCGTAAAAACCCGTCAGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:460:3995:4117/2
+ATTCGCTGCTGGTCCCTTATGGTTTACAGGCTTCTGTGCGGATAGGTTCCGTAAGAGGTGAAACGCTTTTAGTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:461:8143:8267/2
+CAATCGCGGAAGCGACTCAGGCGTGGGCTTAAACACGACTATGGATCTATTGCTCACTTGCATCCGAACAATATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:462:3425:3549/2
+ATGGGCATAGCGGTGAAACCGGTATCCGTCCCTGGGACATTAAGACAGCAGAGTCGGAAAGAAGAGTTCACGGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:463:794:918/2
+GCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:464:5680:5803/2
+AACTGGGGGGCCGGTGCTACGGGATGGATCTAGTTTACAGAGTATCGGGCTGCGATTGCTTTCACTGGCACTTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:465:4339:4464/2
+CGCTAATGAGCCGAGTTTGATGAGGTACGATCCTTGGTTTCAGCTTTCGAGATCGCGAAATGCTGTAGCGGATAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:466:6732:6857/2
+GCCGCGTGACTTTACAGATTTCTATCACGATTAGCGGCTAAGGTGATACTTTGGACCACAAGCCGACCCTGTTAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:467:4080:4205/2
+ATATATATGAGAGTTAACGCGCAGTCATCAAACCTATCGAGGCAGTGCGTAGACTTAATCAGCTGATGGTGAAGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:468:942:1065/2
+GATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCATAGGCTCGGACGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:469:5125:5248/2
+GGGACCATGCCCGCGTAAAGTGGGGGCCGTTCAGGATTGCCGGTATTAGGCGCTGAGGCTGAATCGGCTAACGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:470:1297:1419/2
+CGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:471:1504:1630/2
+CGCCCCACGCACAAGGGAAGTTACTCTAACGGATAAACGATACGTGGTATACCAGGATATCGCGCCCGCGTGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:472:6238:6361/2
+ATTTCCATAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTTCTCCGGCTAACCACTCAGGGGTTTTGAAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:473:9205:9330/2
+CGGTACTACAACTCCTGACTGAACTTTGTTCCTTATGCTCGGCTTGACTTGCAGTATCATTGGTTTCCGCAGTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:474:2972:3096.dup.2/2
+TATCAATACTTAGGGAAAGTGGATCGGTGGAGCAACTCTAGTATAAATTACTTGCCAGCATATCGCTCGGCAAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:475:2252:2375/2
+GGGGTGACGGTATCCCAGGCTTAGCATCGAACCAATATGACCTAGTGCACGAGCCCTTTTCAGCATCCACCAATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:476:5762:5886/2
+CACGACACGCGCATTTGAAATGGCCCTGTAAGGGTACGTTTTGGACCGTGTTACTGCCCCGGGCGTTCGTTGTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:477:8271:8394/2
+AATTTCCCTGCGTCAGGCATGATGTCGCGCCTCTGTCACTGATCGTTTCGCGATCCGCGACAATCAGAAGTATATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:478:18:140/2
+GTCGGGCATCAACCCGTTCTACCAGACTGTACGTGAAGCACATTTCCTTCCACGTTGAGCTATGTCACTACAGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:479:1560:1683/2
+GTGGAACTAGCCGGTTCAGGCTGGTGAGAATACTTCTCTACTTTAATGCTTAACGCCCCACGCACAAGGGAAGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:480:6418:6542/2
+GGAACGTAGTCAATACGTTACGTGTCCGGATGACGGTCCCCTACGCACTTACCGACGATCGTTGGCGATACACTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:481:1174:1298/2
+CACCTGTACTCTTGGTTAGTTGATCCTCTGGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:482:9506:9630/2
+TCATCTGCTATGCCAAGGTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCACATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:483:2488:2612/2
+AATTTGAACATAATTAACGAAAATCAGTAATAGAGGGTGCTGTTATCCGGCGGCGGCCTAAAGGCGTTCCCTATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:484:8539:8661/2
+CAGGAATCCGTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:485:6808:6932/2
+CTGTTCTCCATGATTCCGTACGCAAGCCGCAAGGACTCCCGTCCCTATCCCCATAAATTCAAGGTATGTACGGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:486:9334:9457/2
+AATCTGTACACACGGATGTTTTATCCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:487:6818:6942/2
+CCCGCAAAACCTGTTCTCCATGATTCCGTACGCAAGCCGCAAGGACTCCCGTCCCTATCCCCATAAATTCAAGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:488:7915:8038/2
+GAGGTTGCCAGTGGCGCAATTAAGACTCCCAGGCCCAGTTGCGCAAGTAGTATGCCAGTTGGGTTCCCACTATAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:489:3546:3669/2
+GTGGAAAGCCGAGTTCTCGTGCATAAGATTTTATCAAAACAAATACGTGCACCTCTGCCGGCAATCGATTGTCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:490:2785:2909/2
+CCCTCACGTCCAATCCTATGCTTGGCTACGGCACGTAAGATTCTCGCCTCGGCCCGCAAGACATCGCAACGCCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:491:2923:3047/2
+ACTTGCCAGCATATCGCTCGGCAAGCTGACACCGGCGAACCATGATGCGGGGCCGGACGGGGGACAAACTTTTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:492:8514:8637/2
+TTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTACTATACAATGCAATCCAAGGTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:493:6399:6522/2
+CGTGTCCGGATGACGGTCCCCTACGCACTTACCGACGATCGTTGGCGATACACTGTCTCCATGTCGATTGGACAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:494:1067:1191/2
+GCGTCACTGCCCAACCGAGGTTCATGAAACCCGGAGACCGAGCCTGAATGTGATGCGGCTACCTCACGTGATGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:495:7524:7647/2
+GGCTAGCGTAAATATAATATTAGCATTATTGTCTGTATCTCGCCTGACGGTCATTAACCCTTCATCTTGGAGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:496:9599:9724/2
+TATGGGCCCTTGAGCGTAAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:497:8037:8161/2
+AACAATAACCAAGCGCGATCAGGGCTCCAGATTAACGATGACACCACAACGTTGTCCTAATATGTTAGCCAAGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:498:9293:9416/2
+GCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGAACAACGATATTCGCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:499:6597:6720/2
+CATGTCCCAACTCATATCGGTGGGTTGAGCGGCGCCACCGTGGGGCTAGGGTAGAAGGATAGCCAGTGTGCCGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:500:8089:8214/2
+TCACTTGCATCCGAACAATATAATGGTAGACTAAAGCTTGATAATTTTGTCACAACAATAACCAAGCGCGATCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:501:9300:9424/2
+CGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGAACAACGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:502:5933:6057/2
+AAGCCCGCCAAGCAAGGAGCTTACAACATGGTCACTCCGCGGCTCACGTTATTAAGTCTATACATGATTCTGAGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:503:7113:7237/2
+CTAATGACTTCGACGCGTAGCAGTAGGAGTAACTACCGAGACAAGACGCAATACGCCCTTCGAATGTGTTATGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:504:5427:5550/2
+AGTGCAGTGTCAGAGTAGACATACACATACGATGACCCAATTACGCGCAAAGGTAACCAAGCCGCATAGGCGACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:505:4221:4346/2
+AGCCTGCCTTGGCCAGACCGATTTAGATAAGATACCACTCTTCGTCCAATTCATTCGATTCGTAGTCGGTATTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:506:7237:7361/2
+GATATAATTTCCGGTGCGCCATTCACGTACTAGTTCCCACCAATGACTGGTTGCCTCCGTATCGGTACCGGACCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:507:7848:7972/2
+CCACTATAGCATTCGGAACCTGACCAGCGGCATTCCTGGTTACTCAGTGTGGTCTTATCTGCTCATTGCTGATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:508:2871:2995/2
+CCGGACGGGGGACAAACTTTTGTGGAGTTAATGAACGGGCCGTCGCCCCAAGTCTACTCACCACTGGTACGGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:509:6582:6706/2
+TATCGGTGGGTTGAGCGGCGCCACCGTGGGGCTAGGGTAGAAGGATAGCCAGTGTGCCGGGTCGGTCCCTGCTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:510:786:909/2
+CTCAGTCCCTCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:511:9266:9391/2
+TTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGAACAACGATATTCGCAAATAGGACAGGCCGGTACTACAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:512:8890:9012/2
+GGCCTGTCGGTATATTTAATATCCGTAGCCACTGTATAACGAATGCTTTAATAATACGGATCTAATCTCCGTTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:513:3502:3625/2
+ACGTGCACCTCTGCCGGCAATCGATTGTCGGTACTGCGTACCACCTGGCGGATCCCCCTCGTAGATCCGAGTTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:514:9314:9438/2
+TTTATCCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:515:4255:4378/2
+GCCCCATGGAAGGCTGTCCAGAATCTGTGGCGAGCCTGCCTTGGCCAGACCGATTTAGATAAGATACCACTCTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:516:112:235/2
+TTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:517:3118:3243/2
+CGACTTCTGCTCAGAACAAACGTGATTAGAGTCCAGATTGGCAAGGACACCACCTATAGCATCAACTGTCCTGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:518:9695:9819/2
+ACAAAGGGGGAGACTATTAAGACCGTCTGTAAAAATAGCATTTTGCGGCGTGGTCCCTGTTAAGGACACCACGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:519:1908:2033/2
+CACGGAAGAGCAAGGCTTATGAATTCCGTCTGTATTCGCCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:520:7604:7728/2
+GACATCAACCTACAAGTATTGCCGCGATTCGAAGATCCGTGGATATCATCGGTGAGTGAGGGTACAACGGATGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:521:4795:4919/2
+AAAGAGTGACATCCGGGACTATAAAAAGACGTTCCCGCGGATCCTCCAGGTACAGCACTGGGAGTTGACGCCGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:522:3847:3969/2
+AGCCACGCGGTAATTCTGCACGTGGGTATGACGTAGGTGTAGTATGAAACCAGTAAGTTGACTATAGACCGAGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:523:3373:3497/2
+GTCGGAAAGAAGAGTTCACGGTCGCATTCGCGCGATAGCCCGCGAATTTTAGATGCGGCGTAGAAAGGCGGACCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:524:8130:8254/2
+GACTCAGGCGTGGGCTTAAACACGACTATGGATCTATTGCTCACTTGCATCCGAACAATATAATGGTAGACTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:525:2410:2533/2
+TTTGTCCCACCAGACTACCTTATCGAAGTCATGGTCAGTACACCGAGGGCAAAGGAAGTTCCCTGTGGCTGTTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:526:3107:3230/2
+GAACAAACGTGATTAGAGTCCAGATTGGCAAGGACACCACCTATAGCATCAACTGTCCTGTGATCAGAGGCTCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:527:145:268/2
+CGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:528:2336:2461/2
+TTGCGGTTCACGGGGGGTACTCACTTTAAGCTCTCTCGGGAACGAGTCGCGGGGTGTGTGAACAACTATCAAAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:529:8011:8136/2
+TCCAGATTAACGATGACACCACAACGTTGTCCTAATATGTTAGCCAAGAGAACGCAGAGGCTACCGGCTATAAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:530:8307:8431/2
+ATATGGCTGTACCTACGAACTCTTATACAGCTCTCCGAATTTCCCTGCGTCAGGCATGATGTCGCGCCTCTGTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:531:3477:3601/2
+TTGTCGGTACTGCGTACCACCTGGCGGATCCCCCTCGTAGATCCGAGTTCCAATGGGCATAGCGGTGAAACCGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:532:8123:8246/2
+CGTGGGCTTAAACACGACTATGGATCTATTGCTCACTTGCATCCGAACAATATAATGGTAGACTAAAGCTTGATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:533:7483:7606/2
+GCCTGACGGTCATTAACCCTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTACACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:534:7375:7499/2
+GGCGTCCGTACCCGAAGTTCCTATACTCCACGTCCCTATCGGTTCATGCGCCCTCGATGTAACTAGTGATGTTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:535:7316:7440/2
+TAACTAGTGATGTTCGAGCCAGATACGCTGCGTAAATACATATCTGAGAACGGGCGTACGACATAAAACCGAATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:536:2141:2266/2
+ACAATACAACGGTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:537:953:1078/2
+TCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:538:5924:6048/2
+AAGCAAGGAGCTTACAACATGGTCACTCCGCGGCTCACGTTATTAAGTCTATACATGATTCTGAGCATAAAACGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:539:2451:2574/2
+GCTGTTATCCGGCGGCGGCCTAAAGGCGTTCCCTATGTTATTTTGTCCCACCAGACTACCTTATCGAAGTCATGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:540:1119:1243/2
+ACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGCGTCACTGCCCAACCGAGGTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:541:8816:8939/2
+AACGGACAGTGAGAAAACATGATCAATCGAAAGTCGGTATGAGCTAACCGTCGGCTTTTCTCGCCGAGCTATAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:542:4226:4351/2
+TGGCGAGCCTGCCTTGGCCAGACCGATTTAGATAAGATACCACTCTTCGTCCAATTCATTCGATTCGTAGTCGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:543:9422:9545/2
+GCATCTTGGCTACTCTCGCACATGATGGGGCGCCGGACACGCCCCCCCGCACATCACTCGTGTTTGCTTTCGGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:544:2431:2554/2
+TAAAGGCGTTCCCTATGTTATTTTGTCCCACCAGACTACCTTATCGAAGTCATGGTCAGTACACCGAGGGCAAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:545:1724:1846/2
+CAAGTATCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAGGTCGTGGGCTAACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:546:998:1123/2
+TGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:547:9770:9894/2
+TAAAAATCGTGTGTGGAGTGAAATCGGGAAAACGAAATGATACTTGATACAGCTTGCGGACTGATCCACTTACCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:548:2856:2981/2
+AACTTTTGTGGAGTTAATGAACGGGCCGTCGCCCCAAGTCTACTCACCACTGGTACGGAGAATCAGACGTAGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:549:6269:6392.dup.2/2
+GCTTTCTGCAAGTTAGACTGACTAACCGCAGATTTCCATAGTAACTAAATGGCCGAATTGATGATGTGCTTGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:550:5288:5411/2
+CCTCAACTAGCAACCGATTCGGTGTTGCCACTATAATACGGACACCATTCCGGGGAACTAGGTGACTGCACTATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:551:745:869/2
+GACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:552:9442:9567/2
+TAAGTCCCACATTAAGCGTTGGGCATCTTGGCTACTCTCGCACATGATGGGGCGCCGGACACGCCCCCCCGCACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:553:9235:9357/2
+ACAACGATATTCGCAAATAGGACAGGCCGGTACTACAACTCCTGACTGAACTTTGTTCCTTATGCTCGGCTTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:554:9758:9881/2
+TGGAGTGAAATCGGGAAAACGAAATGATACTTGATACAGCTTGCGGACTGATCCACTTACCTACAAAGGGGGAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:555:7349:7474/2
+CTCCACGTCCCTATCGGTTCATGCGCCCTCGATGTAACTAGTGATGTTCGAGCCAGATACGCTGCGTAAATACATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:556:250:374/2
+CAGACTGAATGGCCCCTCAGTCTTAGCTGAGAGTTAACGTCCGACTATCCACTTGCATGGGGCTAGATTCAGGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:557:6135:6259/2
+GTTAACGTGTAAATTGGCAAAGGTTGCTCCCCTACTGTGGGACTTGCATACCTATTCATAATGCCGAATATGTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:558:9110:9234/2
+AGATATTTATGGTAATGTTCCTGAGATAACCGTGGCTTGGACCTATGGCTCCTGGAAGACATACCCATAAGCTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:559:6695:6817/2
+AGGTGATACTTTGGACCACAAGCCGACCCTGTTAGAGGTTTAGCGCGATTTGTATTACTGTCCACTCGGAGGTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:560:108:231/2
+ACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:561:9461:9584/2
+GCGACCGATGACGCTCATAAGTCCCACATTAAGCGTTGGGCATCTTGGCTACTCTCGCACATGATGGGGCGCCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:562:1763:1886/2
+AAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACAGGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:563:2821:2944/2
+GTCTACTCACCACTGGTACGGAGAATCAGACGTAGCCCTCACGTCCAATCCTATGCTTGGCTACGGCACGTAAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:564:9512:9634/2
+ACTCTCATCTGCTATGCCAAGGTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:565:5258:5383/2
+CACTATAATACGGACACCATTCCGGGGAACTAGGTGACTGCACTATTAACTTTGTGGGCAGCACATCCGCCCGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:566:1723:1848/2
+CACAAGTATCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAGGTCGTGGGCTAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:567:71:196/2
+AAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGCATCAACCCGTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:568:2859:2984/2
+ACAAACTTTTGTGGAGTTAATGAACGGGCCGTCGCCCCAAGTCTACTCACCACTGGTACGGAGAATCAGACGTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:569:6690:6813/2
+GATACTTTGGACCACAAGCCGACCCTGTTAGAGGTTTAGCGCGATTTGTATTACTGTCCACTCGGAGGTATTTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:570:6590:6714/2
+CCAACTCATATCGGTGGGTTGAGCGGCGCCACCGTGGGGCTAGGGTAGAAGGATAGCCAGTGTGCCGGGTCGGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:571:1624:1747/2
+GTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTGGAACTAGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:572:1633:1755/2
+GGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:573:8532:8656/2
+ATCCGTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTACTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:574:9775:9895/2
+ATAAAAATCGTGTGTGGAGTGAAATCGGGAAAACGAAATGATACTTGATACAGCTTGCGGACTGATCCACTTACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:575:6586:6708.dup.2/2
+CATATCGGTGGGTTGAGCGGCGCCACCGTGGGGCTAGGGTAGAAGGATAGCCAGTGTGCCGGGTCGGTCCCTGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:576:5464:5589/2
+ATCGTGTCCTCCGCCAGCTGTTTCTTGCGCCTCAAGAACAGTGCAGTGTCAGAGTAGACATACACATACGATGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:577:8348:8471/2
+ATCGGCGGATGTTGACAAACTCTCACCTAGATTACCTTTAATATGGCTGTACCTACGAACTCTTATACAGCTCTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:578:1784:1906/2
+TGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:579:4359:4483/2
+TGTGCTTTGAATCATAGCCCGCTAATGAGCCGAGTTTGATGAGGTACGATCCTTGGTTTCAGCTTTCGAGATCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:580:7286:7407/2
+AAATACATATCTGAGAACGGGCGTACGACATAAAACCGAATCCAGGGATATAATTTCCGGTGCGCCATTCACGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:581:1034:1157/2
+AGACCGAGCCTGAATGTGATGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:582:4914:5036/2
+TAATCCCGGCCAGAAGCCTGATTTAGACCCCCAGCAGCGCGGACCCTTATTTCAGGAGCGCGAGTACCAATTGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:583:580:705/2
+ATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTCTTAGAACCCCTAATGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:584:4919:5044/2
+GAGGAGCCTAATCCCGGCCAGAAGCCTGATTTAGACCCCCAGCAGCGCGGACCCTTATTTCAGGAGCGCGAGTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:585:3344:3468/2
+GCGCGATAGCCCGCGAATTTTAGATGCGGCGTAGAAAGGCGGACCCATTACGCTTATTCGGGCACATACCGCATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:586:4854:4977/2
+GCGAGTACCAATTGTGGTCCTCGTCTTTGATAGTATTAGCAGGACGCCTAGTCTGCCTAAAGAGTGACATCCGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:587:2119:2240/2
+GTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATATCTCCGAGCATGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:588:9583:9707/2
+AAAAACCCGTCAGATCATGTAGGGGTGGGGCATTACCAGAGGATCGTCGTGGAGTTGGTGAGAATCCACACGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:589:2198:2322/2
+CCCTTTTCAGCATCCACCAATTCAAGTGCGCCTAATAGAGCTACTGCCAGGGCGAGACAATACAACGGTACTTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:590:7203:7327/2
+TCCCACCAATGACTGGTTGCCTCCGTATCGGTACCGGACCGAGATTACCAAGCAGCGTTCGGTGACATGGCCAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:591:6000:6124/2
+GTGCGGAACGATAGGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGACTCTGAAGCCCGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:592:4788:4913/2
+TGACATCCGGGACTATAAAAAGACGTTCCCGCGGATCCTCCAGGTACAGCACTGGGAGTTGACGCCGAACCCAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:593:3630:3754/2
+CTGGGAACAAGAGGAATGCAATTGGAATGCGGCCTCCGTCGGATGCAAATAGCGTACGATTTGTCATAGACTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:594:9075:9199/2
+CTTGGACCTATGGCTCCTGGAAGACATACCCATAAGCTCACGGGTCCGCGGCGCATGGTAGCATCTGACGGGTGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:595:5680:5803.dup.2/2
+AACTGGGGGGCCGGTGCTACGGGATGGATCTAGTTTACAGAGTATCGGGCTGCGATTGCTTTCACTGGCACTTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:596:1085:1210/2
+GGCTCCGTAACTGAACTTCGCGTCACTGCCCAACCGAGGTTCATGAAACCCGGAGACCGAGCCTGAATGTGATGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:597:8740:8862/2
+GTGACGGCTCACGAGGAAGAACTCGGAAACTGTACCGCAGGGACAGGTTACGCAAGTTTACACAGGGTTGCCCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:598:4438:4562/2
+GGCAGCCGATTAAGTCTGCGGCGTTTAGATTACGAACACACGGATCCGAGCTAGATAGTATGCACGGCCTCTAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:599:7390:7515/2
+CCCGGCGCCAGACGTCGGCGTCCGTACCCGAAGTTCCTATACTCCACGTCCCTATCGGTTCATGCGCCCTCGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:600:3587:3710/2
+GCAAATAGCGTACGATTTGTCATAGACTCTCATATAACCTCGTGGAAAGCCGAGTTCTCGTGCATAAGATTTTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:601:3717:3840/2
+CGTGGACCAAGCCTAAGACAGGGTCTATCACACTGTATTCTACACCCGGGGTCAGACACCGTAGTCTTATCCTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:602:8529:8653/2
+CGTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTACTATACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:603:5153:5278/2
+GCGTCTCCACGCTAAACACTACCTCATAATGGGACCATGCCCGCGTAAAGTGGGGGCCGTTCAGGATTGCCGGTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:604:8879:9002/2
+TATATTTAATATCCGTAGCCACTGTATAACGAATGCTTTAATAATACGGATCTAATCTCCGTTAACGGACAGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:605:5523:5646/2
+ACCCTTAAATTCGCATTCTTTCGGCGGGGCCTCTACCCAGACGAAACCCGGCCCCTCATCGTGTCCTCCGCCAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:606:2052:2176/2
+CCGAGCATGACGAACATAGCTTGGAGGGTTCAATGTATCAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:607:5206:5330/2
+GTGGGCAGCACATCCGCCCGATGGGGACGAGGACGTTCAAGTATTTTTATGCGCGTCTCCACGCTAAACACTACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:608:1166:1290/2
+CTCTTGGTTAGTTGATCCTCTGGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:609:4903:5027/2
+CCAGAAGCCTGATTTAGACCCCCAGCAGCGCGGACCCTTATTTCAGGAGCGCGAGTACCAATTGTGGTCCTCGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:610:4702:4826/2
+ACGTACACCAAAGGACTCCGTTACGGCGTTGCGGCCATGTAGACGATCTAGCTCCAGCGGATGACTATAGGACACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:611:7483:7605/2
+CCTGACGGTCATTAACCCTTCATCTTGGAGAACTGGTGTTTTACCAGGGAATTAACCGATATAGCTATTTACACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:612:7172:7297/2
+GTACCGGACCGAGATTACCAAGCAGCGTTCGGTGACATGGCCAGCTCAGACCGTAAACCCCTAATGACTTCGACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:613:9176:9298/2
+TTATGCTCGGCTTGACTTGCAGTATCATTGGTTTCCGCAGTCTACCCGTGTCATAGTGATCGCTAGATATTTATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:614:9511:9634/2
+ACTCTCATCTGCTATGCCAAGGTTCCCATATTCAATACAACGGGGTATACGCGACCGATGACGCTCATAAGTCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:615:7909:8033/2
+TGCCAGTGGCGCAATTAAGACTCCCAGGCCCAGTTGCGCAAGTAGTATGCCAGTTGGGTTCCCACTATAGCATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:616:6824:6946/2
+ACTACCCGCAAAACCTGTTCTCCATGATTCCGTACGCAAGCCGCAAGGACTCCCGTCCCTATCCCCATAAATTCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:617:5691:5816/2
+TGTTAGCCCCCTAAACTGGGGGGCCGGTGCTACGGGATGGATCTAGTTTACAGAGTATCGGGCTGCGATTGCTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:618:7415:7539/2
+ATTTACACAGGTCTACACCCACTTCCCGGCGCCAGACGTCGGCGTCCGTACCCGAAGTTCCTATACTCCACGTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:619:1637:1761/2
+CTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:620:7579:7701/2
+TTCGAAGATCCGTGGATATCATCGGTGAGTGAGGGTACAACGGATGACTATTAAGGCTAGCGTAAATATAATATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:621:5815:5940/2
+ACCTTAGTTGGGAGTCGTCCATTGCTGTGTCAAGGTGTCCGGTCAGCACTCATCCACGACACGCGCATTTGAAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:622:3553:3677/2
+ATAACCTCGTGGAAAGCCGAGTTCTCGTGCATAAGATTTTATCAAAACAAATACGTGCACCTCTGCCGGCAATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:623:2439:2563/2
+GCGGCGGCCTAAAGGCGTTCCCTATGTTATTTTGTCCCACCAGACTACCTTATCGAAGTCATGGTCAGTACACCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:624:752:876/2
+TTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:625:5182:5304/2
+ACGAGGACGTTCAAGTATTTTTATGCGCGTCTCCACGCTAAACACTACCTCATAATGGGACCATGCCCGCGTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:626:2112:2236/2
+TGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATATCTCCGAGCATGACGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:627:2394:2516/2
+CCTTATCGAAGTCATGGTCAGTACACCGAGGGCAAAGGAAGTTCCCTGTGGCTGTTTGCGGTTCACGGGGGGTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:628:6013:6137/2
+TCAGACAATCTCCGTGCGGAACGATAGGACTTACCCCTCCTTTTATTTCTCCCAACGTTAGTTGTTGAGTTGTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:629:7617:7740/2
+TATTTTGGGGAGGACATCAACCTACAAGTATTGCCGCGATTCGAAGATCCGTGGATATCATCGGTGAGTGAGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:630:7166:7290/2
+ACCGAGATTACCAAGCAGCGTTCGGTGACATGGCCAGCTCAGACCGTAAACCCCTAATGACTTCGACGCGTAGCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:631:350:475/2
+GCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:632:2993:3115/2
+TACACCGGAACGCCGGGCGTATCAATACTTAGGGAAAGTGGATCGGTGGAGCAACTCTAGTATAAATTACTTGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:633:1769:1891/2
+CTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:634:4568:4691/2
+CCTTCCGTGGCTTGGCATGAAAATCCAACAATGTGCTTGCTCTGGGGACCACTGGCGTCATGCCGCGTCTCAGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:635:9328:9452/2
+GTACACACGGATGTTTTATCCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:636:4398:4521/2
+GGATCCGAGCTAGATAGTATGCACGGCCTCTAAGCTTGTGTGCTTTGAATCATAGCCCGCTAATGAGCCGAGTTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:637:9799:9924/2
+GGACTCTCTCGTTTAACTAAGTCTGAAGCATAAAAATCGTGTGTGGAGTGAAATCGGGAAAACGAAATGATACTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:638:2345:2468/2
+TGGCTGTTTGCGGTTCACGGGGGGTACTCACTTTAAGCTCTCTCGGGAACGAGTCGCGGGGTGTGTGAACAACTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:639:1761:1885/2
+AATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACAGGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:640:6963:7086/2
+CCCTCCACTTGCGTCGTATGTACTCGGCCTCAGTTGGTTCTGCTCTCACTAAAGGATCAGTCGCTGCCTTCCTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:641:8529:8653.dup.2/2
+CGTTGACACGTGTACGTTCACTAGTCTGGGTGTCGATTTTAGATTCTGCAGAAAGCTAGTATGGCTTACTATACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:642:6967:7090/2
+ATCGCCCTCCACTTGCGTCGTATGTACTCGGCCTCAGTTGGTTCTGCTCTCACTAAAGGATCAGTCGCTGCCTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:643:744:867/2
+CACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTATCCTTAATGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:644:2790:2914/2
+CGTAGCCCTCACGTCCAATCCTATGCTTGGCTACGGCACGTAAGATTCTCGCCTCGGCCCGCAAGACATCGCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:645:2917:3041/2
+CAGCATATCGCTCGGCAAGCTGACACCGGCGAACCATGATGCGGGGCCGGACGGGGGACAAACTTTTGTGGAGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:646:4986:5110/2
+TGGAAGGGCCTCCTGCCCATAGAATCCGTTTCTATTCCCGCGGTAGTCTTAAAGGTACAAATAGACGAGGAGCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:647:9063:9187/2
+GCTCCTGGAAGACATACCCATAAGCTCACGGGTCCGCGGCGCATGGTAGCATCTGACGGGTGCTAAGCTATTGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:648:2098:2222/2
+TGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATATCTCCGAGCATGACGAACATAGCTTGGAGGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:649:944:1068/2
+TTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCATAGGCTCGGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:650:348:472/2
+GGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:651:8966:9090/2
+TTGCCGGTCTCATAAAGTGACCCTGTACATAGGTTGTATAGCCGAGGACCAAGACGTCCTTCGCTCCCCTTTACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:652:9309:9433/2
+CCATCGTAACGGAAGCCGCGAATGCTATAAGGGAGGCCCGCCTTAAAGCTGCTTCCGATTGTAGCGTGGGTCTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:653:3374:3499/2
+GAGTCGGAAAGAAGAGTTCACGGTCGCATTCGCGCGATAGCCCGCGAATTTTAGATGCGGCGTAGAAAGGCGGACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:654:6381:6506/2
+TCCCCTACGCACTTACCGACGATCGTTGGCGATACACTGTCTCCATGTCGATTGGACAACATCGATAAATCTTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:655:3879:4002/2
+ATGTAGATGGGTTGCGACTGTGGAGAGGGGTTTAGCCACGCGGTAATTCTGCACGTGGGTATGACGTAGGTGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:656:6537:6661/2
+TAGCCAGTGTGCCGGGTCGGTCCCTGCTGGTGAAAACCTGTCTGGGCCGGGGTCTCCCAACTTAGCTCCATTATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref1:657:2999:3122/2
+ACTCTAGTACACCGGAACGCCGGGCGTATCAATACTTAGGGAAAGTGGATCGGTGGAGCAACTCTAGTATAAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:658:5575:5699/2
+CTGCCCCTCTGGACACCAGGAAAAGCATGAGACAATAGGATTCTCGCTTTGACTTTGCGCATGGAAAGGAATTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:659:7392:7516/2
+TTGCTCTTTGTCCGGTATTCTGTGAAACCCTATGTCCTTTGTGACTCCGTTGTTATGGTATGTAACCCTCAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:660:8250:8373/2
+CTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACTAGTCACACTACGACTCTATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:661:2128:2251/2
+CCCGGGCAGGGTGGATCTAGTACTCAGGCCGTTCTCATTGTTACCTGGCATTATGCAGAAGATAGCGGGGTAGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:662:5784:5908/2
+ATCAGTTGGCGGAAAGGAACAAGCAAACCGACTCTCGCTCGGTTCACCCCACTGGCGTAGGAGTTCGAGTTGGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:663:7678:7800/2
+TAACCGGTGCATCAGAACACCTTAGGGGTTCATCACGTTGCGGTGCGCCTTGCGGATGGATGTGCTATTACACCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:664:4517:4643/2
+GTAGTGCTGCTGTATGTGTAAAGACTCGGGGCCGCGATATAGAAAGAGCCCTAACACGGGGTAGGATAAATGCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:665:4208:4330/2
+GAAACCTTAAGATACACACATAAGTATGGGTTAGACGTGCGCTAGAGCCGTTCAATCGCCTTCTATCTATACCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:666:3334:3457/2
+TGCTGTCTTTACCTAAGCCTCAAATGGTACCTCACCCTGATGCAGGACGGAAGTCGACACCTAAAGATGGCTTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:667:8692:8816/2
+TAGAGAGCAGGAGGATCTATACTATCGTATTAGTTTTTTTTCAATGAAAGAGTATCCGCTCCGTCTTCCCGTCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:668:1214:1337/2
+TTCGAGACGATGAAACCGTATTCACCGATGCCCGAATCATATATGACTTATCTGTCCACACAAACAACCTCTTTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:669:6143:6266/2
+CAATGCCGGCCCCCATGTGGCTCATCAATTGTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTTCGCCGGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:670:3185:3307/2
+TGTAATGTAGTTAGGCCAGTGCAGAACTTCTCGACCTTACCCATTGTCGCGGGAACATCTGGTGCATCCCAGGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:671:219:342/2
+GGACCGTTATGGCGCCTACATAGAGTCCGCAGCCTTCGTACAATGAGGGTCGTCTTATAGTATTTGCGACGCTTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:672:7360:7484/2
+TGTCCTTTGTGACTCCGTTGTTATGGTATGTAACCCTCAACTCCTTTATCCGCCTTTCGCCTTCCCATCGAAAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:673:2468:2590/2
+GAAGCCTGACATTGGGCTAATGTACAAATGGATGAGTGCGAGAGCTGTGGAACGCTCGTACACGGTCTAAGCACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:674:9749:9874/2
+GGAAGCTTGGCTCTCTTGAGCGCCCGGTTACATAGTGATAAGCGCTCCATGGGCGGACAGGCCAACCGGAGCGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:675:8742:8865/2
+TACTCGAGTGGTGCATTAACTCACGGACCGAGGGGATCGGCCAACATACTAGAGAGCAGGAGGATCTATACTATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:676:1378:1502/2
+TGACATATACAGGCGCGTAGCGTACATGGTTTCTCATTGGGTTTGCCGGGGACCTTACGCGTGGAGCCCCAACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:677:218:340/2
+ACCGTTATGGCGCCTACATAGAGTCCGCAGCCTTCGTACAATGAGGGTCGTCTTATAGTATTTGCGACGCTTTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:678:522:647/2
+GGGACGCGTGATACGTAGGTGTCATCAAGTGTGCCTGCAATGCTAAGTTTCGAGGAGGATCCTAGCCGTAGACTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:679:7595:7718/2
+ATCGGTCGCGCCCCGATTTCCGAAGAATCTAATGGGATGAACCGGTATAAAACCCGTTCATGCCCTTATCTGCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:680:6179:6302/2
+AGCAAACGATAGTGTTCTATCGCTGTGCTGTACTTTCAATGCCGGCCCCCATGTGGCTCATCAATTGTAAATACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:681:7204:7328/2
+TCGTGAGTCTAGTGCAGCCATGAAACTGTAACCCGAGGAAATTAATTGTTATGGTCACGCAATCCCCCCAGCAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:682:6592:6715/2
+CGCCTCCAACATGCCGGCTAATATGAACTCAAAAGTGTCTCGGTTGTGGAAAATGAGCTATGAAGTCGGTGTCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:683:4965:5089/2
+GTCTCTCGTTAAGAGATAAGGACCACTGGACAAGTTCTGGCGTTGACTCGCAGGGAGCGGAGTGGAATGATTTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:684:2746:2870/2
+ACGTCAAAGACCAGGAGCCCTCAATTCAACCGAGATCGAAAGCACTATATTACGACCGGGAGTGCAAAAAACAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:685:5399:5521/2
+TGACGGCACTATCGGTTTTTGTAAATATACGGCGTACGTATTCAGCAGCCACTCTAGGCAGACTTATCGACCCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:686:4494:4619/2
+CTCGGGGCCGCGATATAGAAAGAGCCCTAACACGGGGTAGGATAAATGCACGCTTCACACATGCGAAAGCATGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:687:291:415/2
+AAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAACGGGAAGAGTCGGTTGAACACTTGCTAGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:688:5506:5628/2
+TTAACTGGCACGATAATGTTGTTGTTACGAGGCCTGGCATCACAATGTGGTTCGCGCGCGCCTCGACCCCTTTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:689:1654:1778/2
+TTCATACCGTGCCGGCCGGTTTGTGATCGTGGTAATAACATTGGTATAAATGGTGCTTGCAAGTGTACCACCTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:690:8281:8403/2
+AGGATGCTCTGGGCAGTTAACTTGGCAACACTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:691:9075:9199/2
+CCACATATGTCTACAACTGCCAAGTGAGTTTTCGGTCAATTATTTCAGTAATAGAGACCTATTCTCCTATACGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:692:525:648/2
+CGGGACGCGTGATACGTAGGTGTCATCAAGTGTGCCTGCAATGCTAAGTTTCGAGGAGGATCCTAGCCGTAGACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:693:593:718/2
+GTTGAGCATTGAAGAGTCATGCACGTCCAATGTGTATTGTTACCGGAACACAAGAGCTGAGTAGCACTTGCGGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:694:3689:3811/2
+GTAGCAACAGAACAGGCATGTCGTCACGTATCTCTACAAATTTCGGAGCGTAATAATCCTGACCGTGACGTTACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:695:969:1092/2
+TCACCCCGGGACCTGCCGTGACTAGGTCTTATCCATAGAGTAACGTGGTCTCTTCATTGGCTCGTGAGCTTCCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:696:1852:1977/2
+GCGATCCGGGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGAGATGATATATACCATGCGTCTGTATTGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:697:7313:7436/2
+TCCGCCTTTCGCCTTCCCATCGAAAGGAACGGTTGCAGCTGTAGTGGTGCGAGATCATAAGCGCTAAGTAGAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:698:8638:8762/2
+TCCGCTCCGTCTTCCCGTCATGGATTAACATTCCACCGCTGGGGGCGTTGGTTCAAATATCCAGTGCGTCTTCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:699:6950:7075/2
+ATTCAAATTGAGTAGGACTGAGCGGCCACCTCAACCGAGTACCAACTACTGCCTTGCCGACGAGATGTTCAGGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:700:1476:1599/2
+GCTTAATTTAACATAGCCACACCTGATGGCCGCGCGGCTGTAGGACTCGGGTCCGTCAGGTGTCCCCACGTGCATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:701:7694:7817/2
+TAGTATTCGGAAGGTCCTAACCGGTGCATCAGAACACCTTAGGGGTTCATCACGTTGCGGTGCGCCTTGCGGATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:702:7010:7133/2
+AATGAGCTTCTTGTAGTACTTACGGTGTGGCTACGCACTAATTATTCATAGAACTAGCATTCAAATTGAGTAGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:703:1229:1352/2
+AACCCCTTGTCTTAGTTCGAGACGATGAAACCGTATTCACCGATGCCCGAATCATATATGACTTATCTGTCCACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:704:993:1118/2
+AAATTACGCACAGCACATCCATGATTTCACCCCGGGACCTGCCGTGACTAGGTCTTATCCATAGAGTAACGTGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:705:7750:7874/2
+TGCATACGGATAATATATCGATACAGAGCCGATCGTGATCAATTCCAGCTTGAAGTGTAGTATTCGGAAGGTCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:706:1091:1214/2
+CATAGCGGTCTGCGTGTAGATTTTGCTTAAAGGGTCTTGCTACCGCACTCTCCTTTCCGCAACCAACTCTCGTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:707:4067:4190/2
+GCCGCCGAAAATCCTCACGCATGGGGCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:708:6152:6275/2
+CTGTACTTTCAATGCCGGCCCCCATGTGGCTCATCAATTGTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:709:6455:6578/2
+AAACAAGAAATCGACTATGACGAGCATCTATAGGTAAGGCTGGAACGTTGCAACTTATTATCCCAGGAGCATACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:710:5962:6086/2
+AGCTCAATTACCTGATCGCTGCCCCCAATAGTCTCAACCAGTCTCCGGTACGAAGAGCCTATTTGCCGCAAAGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:711:796:919/2
+TAGCAAGAATGTGTGGTTGAGGTATCCTTAATCAGGCCTCATGCACAAGTATCACTAAACAGGATTCAGAGTGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:712:2078:2201/2
+TTATGCAGAAGATAGCGGGGTAGCACTGAAAAGACTCCGTACCCCGCAATGATGCGACGGGCTACTAGGTCTTTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:713:1944:2067/2
+GTCCGGCTATGAATTGTCCTCAGCGGCAGGCCCGTCCTCCTTACCATCAGCTCCGTCTTAACGCCGAGATCATATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:714:4013:4137/2
+ATCGGTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCATATAAATAAGGAACCGCTCACAGTCTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:715:5319:5442/2
+AACTTCCGCTGTTCAAATGTTATAGCTTTAAGAGTCGTACTTATATGCGGCTGCTAGATTTCGATCTGTCACGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:716:6781:6906/2
+AAGAGTCGGACGTCGTCATCTGACGCAGCGACGCATCCCGTTACATAGATCGGGAACTCAGAAGGATTAGGGTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:717:2741:2866/2
+CAAAGACCAGGAGCCCTCAATTCAACCGAGATCGAAAGCACTATATTACGACCGGGAGTGCAAAAAACAAAGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:718:1688:1811/2
+AAAGAGCGCGAGCGGACTACCTTTCGACATGTTTTCATACCGTGCCGGCCGGTTTGTGATCGTGGTAATAACATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:719:5071:5194/2
+CTGTAGGATTTCGAATAGCAAAACTTCCAGAATTGGCCTCTTGCTCCTATAATAACCAGCAGTAGAGGCATCTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:720:7432:7556/2
+GTCGCGGACGGCGGGAACGCCGGTCTGGATATGGTAATAGTTGCTCTTTGTCCGGTATTCTGTGAAACCCTATGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:721:5664:5787/2
+TATTAATGACGGCTAATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:722:8238:8363/2
+TGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACTAGTCACACTACGACTCTATAGGAACTCGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:723:7717:7840/2
+GTGATCAATTCCAGCTTGAAGTGTAGTATTCGGAAGGTCCTAACCGGTGCATCAGAACACCTTAGGGGTTCATCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:724:1022:1145/2
+TCGTACATAGTACCCGTGTAGATTTGGAAATTACGCACAGCACATCCATGATTTCACCCCGGGACCTGCCGTGACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:725:8968:9093/2
+GCCCCTCAGCGTAGGTGCCATATAGTGAACTCTGCGGAACTCGATAGCGTATGCGTGCGTTCAAAATCCATGACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:726:5589:5712/2
+GCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCATGAGACAATAGGATTCTCGCTTTGACTTTGCGCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:727:1621:1745/2
+AATAACATTGGTATAAATGGTGCTTGCAAGTGTACCACCTTGCAATTTAAACCTACGGCGGCTGTGTGCCCGTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:728:784:908/2
+TGTGGTTGAGGTATCCTTAATCAGGCCTCATGCACAAGTATCACTAAACAGGATTCAGAGTGTCTGATGCACTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:729:9471:9596/2
+TGTACTCAGATGGTGCGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTATCTCACCCACACAAGCCGTCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:730:3416:3542/2
+GTGTAATTCGGGTGGCTGAAAAGCCTACCCGTCTTCGTCTGGCAGGGTACTCTATACCTCACGAATCCAGGGTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:731:6828:6952/2
+TAATAGGCACGATGGGGGGTCCTAGTTCTTCGTATTGAATGCATGTAAGAGTCGGACGTCGTCATCTGACGCAGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:732:2017:2141/2
+GCTACTAGGTCTTTTACTCACTTAGGCGGCCGCGCTGCTTTGGGTGGCAAAGGCACGTGTCCATGAGGTATAATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:733:1920:2043/2
+GGCAGGCCCGTCCTCCTTACCATCAGCTCCGTCTTAACGCCGAGATCATATGCGCTTACATGCCGCGCGATCCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:734:3856:3979/2
+GCTGGACGCTTTTGAATAGTGCCCCCGCTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTGTAGCGTTTATATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:735:8122:8246/2
+GTGCCGGCGTGTAGAGCGACACGGCTACCTCGGCGTGCTGGGTTACATCCAGCACCCCGTCAAAAATATCGCTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:736:813:937/2
+TCACATAACAAATGCGTCTAGCAAGAATGTGTGGTTGAGGTATCCTTAATCAGGCCTCATGCACAAGTATCACTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:737:5889:6011/2
+CATGCGGCCATAGATTGCAACCTCTTGGCGACACCTTATAATAGAACTCACGCATTGGGTCCTGGGGCTACCTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:738:1129:1253/2
+CTTATTCCGGGGGCGGTATTCCCATTGTGCCATAAATCCCATAGCGGTCTGCGTGTAGATTTTGCTTAAAGGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:739:5734:5859/2
+CACTGGCGTAGGAGTTCGAGTTGGCTTCGATCGCAAATGTTGGATCTTCTTCTACATCGCCGTGAGACAGTTTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:740:8918:9043/2
+ATGCGTGCGTTCAAAATCCATGACGATCGTCTAGGAATGTCGGGACGTGCCCTCCACAGCTATACTTCGCGCCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:741:5447:5570/2
+CGCCTCGACCCCTTTGCCGCGAGCCTGTACCTGCAACATTCTCCTCCCGTGACGGCACTATCGGTTTTTGTAAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:742:4712:4836/2
+CAAATAACCGAATGATGGTACTCATGTGCGAGAAGAATGAGAGATTACGATACGGCTGATTAAAACATACGACCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:743:3642:3765/2
+AGCGTAATAATCCTGACCGTGACGTTACAAACTTGGCGTATTCCGCCGCCTTCACCCACTGGTGATAGCAGGGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:744:3674:3799/2
+CAGGCATGTCGTCACGTATCTCTACAAATTTCGGAGCGTAATAATCCTGACCGTGACGTTACAAACTTGGCGTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:745:6611:6734/2
+CACAAGCGTACCTTATGGCCGCCTCCAACATGCCGGCTAATATGAACTCAAAAGTGTCTCGGTTGTGGAAAATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:746:2783:2907/2
+CGGCCGCCTTGTGTAGCTCGTTCTGAGATAATCAAACACGTCAAAGACCAGGAGCCCTCAATTCAACCGAGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:747:8698:8821/2
+CATACTAGAGAGCAGGAGGATCTATACTATCGTATTAGTTTTTTTTCAATGAAAGAGTATCCGCTCCGTCTTCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:748:6438:6562/2
+ATGACGAGCATCTATAGGTAAGGCTGGAACGTTGCAACTTATTATCCCAGGAGCATACGAACTCTGCTAGTGTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:749:3113:3238/2
+CAGGGGACGGGTGGGTAACAGAGGAAGCAACACCCGAGTGATTTAACGACACATGTGTGCTGACGGATGGGTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:750:4773:4898/2
+CGACGTCCGTGATGCAAAGATCTCCGTACAAGAAAAACGTTTGTGGGATACGCCCATGTACCCAAATAACCGAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:751:566:689/2
+ATGTGTATTGTTACCGGAACACAAGAGCTGAGTAGCACTTGCGGGACGCGTGATACGTAGGTGTCATCAAGTGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:752:7128:7250/2
+CGATGGGCGACGTTTGACTAGATGTTTATGCTAGGATTTGTGCTCGTAAGCCTATGTTTTAGTCCATCATCAATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:753:7969:8093/2
+GTCTTTTGTGCCACAGCCGCTTCGAACCGGCCTATTCCAGATGGTGCTCCTCTAAGATTCCCGTAAGAACACTCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:754:9071:9194/2
+TATGTCTACAACTGCCAAGTGAGTTTTCGGTCAATTATTTCAGTAATAGAGACCTATTCTCCTATACGGAAGTGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:755:7827:7950/2
+TAGGTGTCTCATTCCTAACCTTCTGAATCTCGGAGTAGTCATCTGTTCCACAATAATTGGAAGTGTTACGTGCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:756:8531:8654/2
+TCCAATTACTCCGCAATTCTACCATCAGCTATTCCTGCGGTTCACTCCGGGCGTCAGATGAGGTGGCTCGTATTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:757:6223:6347/2
+TCCAGCACCCTCATTTCGGTGGTCCTACTCAAACATCGCGCGCCGAGCAAACGATAGTGTTCTATCGCTGTGCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:758:8521:8644/2
+CCGCAATTCTACCATCAGCTATTCCTGCGGTTCACTCCGGGCGTCAGATGAGGTGGCTCGTATTGTCATTGACAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:759:362:487/2
+AAGATCGGCTTCTAATCGGCACTCGCGATAATTACTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:760:1513:1636/2
+TCTGCTGGCGGCGACGTTGCGCACTAGATGGTTGTACGCTTAATTTAACATAGCCACACCTGATGGCCGCGCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:761:7884:8007/2
+CATTATGACACATGGATTTAGAACACCATGAGTTTTTTATAATTGCGGTGTTTGAGGTAGGTGTCTCATTCCTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:762:8259:8382/2
+TTGGCAACACTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACTAGTCACACTACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:763:5206:5330/2
+CCCTGGAGCACTGGACATTTGGGATCAGGGAGCTACTACGCTGGACATGTCGTTTGAAGGAGGGGTTCGTGACTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:764:9145:9268/2
+ATGGTACCGTGCTGGGGCTTCAACTATAAGGATCTCATTTAGTGTAGCCCCCGAGGCATGCCAAGCGAACCACATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:765:1595:1716/2
+GTGTACCACCTTGCAATTTAAACCTACGGCGGCTGTGTGCCCGTATTGTTGATCGCCTTTCCGACAGATCCACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:766:5483:5605/2
+GTTACGAGGCCTGGCATCACAATGTGGTTCGCGCGCGCCTCGACCCCTTTGCCGCGAGCCTGTACCTGCAACATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:767:549:673/2
+GAACACAAGAGCTGAGTAGCACTTGCGGGACGCGTGATACGTAGGTGTCATCAAGTGTGCCTGCAATGCTAAGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:768:2376:2499/2
+GCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTTGGGGATGGCGCAAGTTAAGTACCTAATTTACCTCTCTTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:769:1333:1455/2
+GGGGACCTTACGCGTGGAGCCCCAACGTGTGCAGAAGGCTCTTGAGCGGCGACCTGTCGGATAATCACGAGTAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:770:3065:3188/2
+ACATGTGTGCTGACGGATGGGTAAAGGAACACTCATGCAATAGCGTGCCTTTAAGGTCGCACGTATACTATAGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:771:454:578/2
+AGACTAGGAGGCGCTCAGCACCACGGGCGTAGAAACGACCAAGTGGCGGTTGAGCGAACACTATCCGACAGACGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:772:211:333/2
+TGGCGCCTACATAGAGTCCGCAGCCTTCGTACAATGAGGGTCGTCTTATAGTATTTGCGACGCTTTACAGAAGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:773:1258:1382/2
+GAATGCCGCTCGCAAAACGTTTATTTACATAACCCCTTGTCTTAGTTCGAGACGATGAAACCGTATTCACCGATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:774:2938:3061/2
+AGTGGAAAACTCCCCGGACGCCCCGGTGTGTATGCTACGTCCCTGACAACGATTCGAACATTGCATAGCCAAAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:775:2697:2821/2
+TTACGACCGGGAGTGCAAAAAACAAAGATATGATGGCTCGTCCGAATCGGGTGAATTTGAGTGATAAAATACATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:776:8131:8255/2
+GAGCGATCCGTGCCGGCGTGTAGAGCGACACGGCTACCTCGGCGTGCTGGGTTACATCCAGCACCCCGTCAAAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:777:9384:9508/2
+AGCTTCTCTACGTCCCGCTTGATAAAGTGCTTGTTGGGTTCTACAAATTCAATGTTACCCTGCTACCGGTCCCCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:778:7646:7768/2
+TCACGTTGCGGTGCGCCTTGCGGATGGATGTGCTATTACACCGGCTCTACATCGGTCGCGCCCCGATTTCCGAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:779:3227:3352/2
+TACTAATTCGTGCGTGAAGACAGCTCCAATTGACATCGACAGACATGTAATGTAGTTAGGCCAGTGCAGAACTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:780:5398:5523/2
+CGTGACGGCACTATCGGTTTTTGTAAATATACGGCGTACGTATTCAGCAGCCACTCTAGGCAGACTTATCGACCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:781:7325:7446/2
+AACTCCTTTATCCGCCTTTCGCCTTCCCATCGAAAGGAACGGTTGCAGCTGTAGTGGTGCGAGATCATAAGCGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:782:8948:9071/2
+TAGTGAACTCTGCGGAACTCGATAGCGTATGCGTGCGTTCAAAATCCATGACGATCGTCTAGGAATGTCGGGACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:783:1793:1917/2
+TGCGTCTGTATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAATCTCTGACGTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:784:330:453/2
+CTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:785:4789:4910/2
+CAAAAATCGATTCGACGTCCGTGATGCAAAGATCTCCGTACAAGAAAAACGTTTGTGGGATACGCCCATGTACCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:786:7654:7776/2
+GGGGTTCATCACGTTGCGGTGCGCCTTGCGGATGGATGTGCTATTACACCGGCTCTACATCGGTCGCGCCCCGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:787:2297:2420/2
+TGAATTGTAAACCCAGGTAAATATACAATGAACGCACCTTTACCTTTGTCCCATCCGGCAATGTTAATACCCGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:788:7137:7262/2
+CCCAGCAACGGACGATGGGCGACGTTTGACTAGATGTTTATGCTAGGATTTGTGCTCGTAAGCCTATGTTTTAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:789:6415:6538/2
+TGGAACGTTGCAACTTATTATCCCAGGAGCATACGAACTCTGCTAGTGTTCTTGGCTATAGGTTTACCGTCCTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:790:6229:6353/2
+GAACAATCCAGCACCCTCATTTCGGTGGTCCTACTCAAACATCGCGCGCCGAGCAAACGATAGTGTTCTATCGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:791:1480:1604/2
+TGTACGCTTAATTTAACATAGCCACACCTGATGGCCGCGCGGCTGTAGGACTCGGGTCCGTCAGGTGTCCCCACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:792:420:544/2
+ACGACCAAGTGGCGGTTGAGCGAACACTATCCGACAGACGTTAGTACAGTCATCCCCAAGATCGGCTTCTAATCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:793:621:744/2
+CATCGTCGAACTGCTCGGCGCTGCCGGTTGAGCATTGAAGAGTCATGCACGTCCAATGTGTATTGTTACCGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:794:712:834/2
+GGCGTATAGAAAATGGGCTGACTATCAGACAAACAGCTATTCACGGCATCCCGCCTCGTGCCCGAGTGCAGGGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:795:3694:3819/2
+AGAGAAGGGTAGCAACAGAACAGGCATGTCGTCACGTATCTCTACAAATTTCGGAGCGTAATAATCCTGACCGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:796:511:636/2
+TACGTAGGTGTCATCAAGTGTGCCTGCAATGCTAAGTTTCGAGGAGGATCCTAGCCGTAGACTAGGAGGCGCTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:797:8411:8534/2
+TCTACCGTTAATTTTGTGGCGCATCGGCCCCACCGTGCTGTGTATTATAGTAGCAACTTCCACTACCCATACGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:798:1438:1561/2
+TGTAGGACTCGGGTCCGTCAGGTGTCCCCACGTGCATTTTCGGGGAGAGGCCCGGCAAATGACATATACAGGCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:799:2608:2732/2
+TCTCCACATATTAAAGCCAAAACCAGGGCTCCGATCGGTAGAAGGTCCATTCATCACAGTAGCGGTGACAGTGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:800:9202:9327/2
+TATAGGTAGCCTATCGGATGGGGGGGCTAAGCGTTGGCACAGTTACGCCGAAGTTATATATGGTACCGTGCTGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:801:3327:3450/2
+TTTACCTAAGCCTCAAATGGTACCTCACCCTGATGCAGGACGGAAGTCGACACCTAAAGATGGCTTGTGAGGGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:802:3858:3982/2
+TCGGCTGGACGCTTTTGAATAGTGCCCCCGCTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTGTAGCGTTTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:803:667:790/2
+GGCATCCCGCCTCGTGCCCGAGTGCAGGGGACAATAAACACTGAACCATCGTCGAACTGCTCGGCGCTGCCGGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:804:3417:3540/2
+GTAATTCGGGTGGCTGAAAAGCCTACCCGTCTTCGTCTGGCAGGGTACTCTATACCTCACGAATCCAGGGTCGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:805:1593:1717/2
+AGTGTACCACCTTGCAATTTAAACCTACGGCGGCTGTGTGCCCGTATTGTTGATCGCCTTTCCGACAGATCCACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:806:667:792/2
+ACGGCATCCCGCCTCGTGCCCGAGTGCAGGGGACAATAAACACTGAACCATCGTCGAACTGCTCGGCGCTGCCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:807:6795:6917/2
+TGAATGCATGTAAGAGTCGGACGTCGTCATCTGACGCAGCGACGCATCCCGTTACATAGATCGGGAACTCAGAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:808:4209:4331/2
+AGAAACCTTAAGATACACACATAAGTATGGGTTAGACGTGCGCTAGAGCCGTTCAATCGCCTTCTATCTATACCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:809:3622:3745/2
+GACGTTACAAACTTGGCGTATTCCGCCGCCTTCACCCACTGGTGATAGCAGGGGTAATGCTTGAGCGTAAGGGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:810:5320:5444/2
+CTAACTTCCGCTGTTCAAATGTTATAGCTTTAAGAGTCGTACTTATATGCGGCTGCTAGATTTCGATCTGTCACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:811:1127:1251/2
+TATTCCGGGGGCGGTATTCCCATTGTGCCATAAATCCCATAGCGGTCTGCGTGTAGATTTTGCTTAAAGGGTCTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:812:7028:7153/2
+GACCCGCTTTCTTTCCAACGAATGAGCTTCTTGTAGTACTTACGGTGTGGCTACGCACTAATTATTCATAGAACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:813:7423:7547/2
+GGCGGGAACGCCGGTCTGGATATGGTAATAGTTGCTCTTTGTCCGGTATTCTGTGAAACCCTATGTCCTTTGTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:814:6117:6240/2
+AATTGTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTTCGCCGGTCATTCCGGGGTCGAAACTGCCCGATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:815:4837:4960/2
+GAAGACCAAATAGCCTATAAACTCAGGATATGGTCTATTGTCGTAATAAACAAAAATCGATTCGACGTCCGTGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:816:9464:9588/2
+GATGGTGCGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTATCTCACCCACACAAGCCGTCGTATAACTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:817:3596:3718/2
+GCCTTCACCCACTGGTGATAGCAGGGGTAATGCTTGAGCGTAAGGGATCTTAGCAATAATTAGCCACGCTCCCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:818:5134:5257/2
+TTGCTATCACGCGTACATAGAGACTGTGTTTCCGCGGCCGGTCCATGCGCTTGTTCCTCTATCCTGTAGGATTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:819:4823:4946/2
+CTATAAACTCAGGATATGGTCTATTGTCGTAATAAACAAAAATCGATTCGACGTCCGTGATGCAAAGATCTCCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:820:3997:4123/2
+GGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCATATAAATAAGGAACCGCTCACAGTCTTCAAGTCCGGCAGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:821:3001:3123/2
+TACTATAGTCTTTGGCAATAATGTAGTCAAGAGTACATACACTTGCGTTCAGCCTTGAACAAAGTGGAAAACTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:822:2888:3011/2
+GATTCGAACATTGCATAGCCAAAACACTACGAACTGCAACATATTTACGACTCATAGGAAGCTCGCGTGGGACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:823:7583:7705/2
+CGATTTCCGAAGAATCTAATGGGATGAACCGGTATAAAACCCGTTCATGCCCTTATCTGCGCGTGGGAGCAGAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:824:4320:4442/2
+GTTCACACAAATTAGGTACTCCGAGATTCTCGCGGGCTAAGCTAAAAACCGCAACAGCTTCGATGCTATCTCCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:825:5291:5414/2
+TAAGAGTCGTACTTATATGCGGCTGCTAGATTTCGATCTGTCACGGACGACGCGAACGTCAGTTAGACGGTGGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:826:9046:9169/2
+TTCGGTCAATTATTTCAGTAATAGAGACCTATTCTCCTATACGGAAGTGTAGTCATGAGCGCAGCGGAACCTCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:827:4257:4382/2
+CGATGCTATCTCCTTAATTCTCGCGCTTCCATCCATGCCCTTATTGTTAGTAGAAACCTTAAGATACACACATAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:828:9346:9469/2
+TCTACAAATTCAATGTTACCCTGCTACCGGTCCCCTAAGTTTACTCATTATAATCTCACACTATGAACGGAATTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:829:9393:9518/2
+ACTTCGACCAAGCTTCTCTACGTCCCGCTTGATAAAGTGCTTGTTGGGTTCTACAAATTCAATGTTACCCTGCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:830:9700:9825/2
+TGGGCGGACAGGCCAACCGGAGCGTCATACTCATACTTGCGGCAGACACAGAAGTGAGTGCGATGCAGTTCTAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:831:8271:8394/2
+TGGGCAGTTAACTTGGCAACACTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:832:4210:4334/2
+AGTAGAAACCTTAAGATACACACATAAGTATGGGTTAGACGTGCGCTAGAGCCGTTCAATCGCCTTCTATCTATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:833:9275:9398/2
+ATTAAGCGGCCCGTGTGCGAGTTTCAGTCAAGGAATCGGGTCTGTTCAGCATAACTTGAGATCCTCATAAGTATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:834:7457:7581/2
+ACCTTCCTCCCAAGCCCCTTCGCATGTCGCGGACGGCGGGAACGCCGGTCTGGATATGGTAATAGTTGCTCTTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:835:8571:8695/2
+GTCTTCTCTTAGGCGGTTGTAACCTTGGGTCGTAAAATCGATCCAATTACTCCGCAATTCTACCATCAGCTATTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:836:46:170/2
+GAAGGAATGCGCTGGGGGTGGTTTTATTCCAGCGGTGTTACCGAACAGCCATATCACTCCACGGGCGTGCTAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:837:2291:2413/2
+TAAACCCAGGTAAATATACAATGAACGCACCTTTACCTTTGTCCCATCCGGCAATGTTAATACCCGTTCTAACGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:838:8536:8658/2
+TCGATCCAATTACTCCGCAATTCTACCATCAGCTATTCCTGCGGTTCACTCCGGGCGTCAGATGAGGTGGCTCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:839:7745:7869/2
+ACGGATAATATATCGATACAGAGCCGATCGTGATCAATTCCAGCTTGAAGTGTAGTATTCGGAAGGTCCTAACCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:840:3760:3883/2
+TGATGTTGTTGCCTCCAATTTGGATGACTGAAACGATAGTGTCAAGTTACGCGTCTACTAAGTGAGAGAAGGGTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:841:4801:4925/2
+TATTGTCGTAATAAACAAAAATCGATTCGACGTCCGTGATGCAAAGATCTCCGTACAAGAAAAACGTTTGTGGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:842:2931:3054/2
+AACTCCCCGGACGCCCCGGTGTGTATGCTACGTCCCTGACAACGATTCGAACATTGCATAGCCAAAACACTACGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:843:5225:5351/2
+TAGACGGTGGTCGTTCAGCAACCCTGGAGCACTGGACATTTGGGATCAGGGAGCTACTACGCTGGACATGTCGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:844:1791:1916/2
+GCGTCTGTATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAATCTCTGACGTTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:845:742:865/2
+CTAAACAGGATTCAGAGTGTCTGATGCACTCGGCGTATAGAAAATGGGCTGACTATCAGACAAACAGCTATTCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:846:9091:9215/2
+AGGCATGCCAAGCGAACCACATATGTCTACAACTGCCAAGTGAGTTTTCGGTCAATTATTTCAGTAATAGAGACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:847:1501:1625/2
+CGACGTTGCGCACTAGATGGTTGTACGCTTAATTTAACATAGCCACACCTGATGGCCGCGCGGCTGTAGGACTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:848:6385:6510/2
+GCATACGAACTCTGCTAGTGTTCTTGGCTATAGGTTTACCGTCCTAACAGATTGTTGCCCGGGGCGCCCTTTATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:849:4811:4935/2
+GGATATGGTCTATTGTCGTAATAAACAAAAATCGATTCGACGTCCGTGATGCAAAGATCTCCGTACAAGAAAAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:850:7247:7370/2
+AGTAGAATGCAGACTGTCATTTAGTACTACAGTAATTGTGATTCGTGAGTCTAGTGCAGCCATGAAACTGTAACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:851:6449:6572/2
+GAAATCGACTATGACGAGCATCTATAGGTAAGGCTGGAACGTTGCAACTTATTATCCCAGGAGCATACGAACTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:852:8340:8462/2
+GTGAGTGAAATCGGGAGCACTTCAGGGGTGCGTCCATACCTACTGCTCCAATGAGCCTTAGGATGCTCTGGGCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:853:1693:1816/2
+GTTAAAAAGAGCGCGAGCGGACTACCTTTCGACATGTTTTCATACCGTGCCGGCCGGTTTGTGATCGTGGTAATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:854:2298:2422/2
+TGTGAATTGTAAACCCAGGTAAATATACAATGAACGCACCTTTACCTTTGTCCCATCCGGCAATGTTAATACCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:855:9727:9851/2
+CCGGTTACATAGTGATAAGCGCTCCATGGGCGGACAGGCCAACCGGAGCGTCATACTCATACTTGCGGCAGACACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:856:3208:3334/2
+GACAGCTCCAATTGACATCGACAGACATGTAATGTAGTTAGGCCAGTGCAGAACTTCTCGACCTTACCCATTGTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:857:1523:1646/2
+CACGGGGCAATCTGCTGGCGGCGACGTTGCGCACTAGATGGTTGTACGCTTAATTTAACATAGCCACACCTGATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:858:5720:5844/2
+TCGAGTTGGCTTCGATCGCAAATGTTGGATCTTCTTCTACATCGCCGTGAGACAGTTTATTAATGACGGCTAATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:859:8384:8507/2
+CCCCACCGTGCTGTGTATTATAGTAGCAACTTCCACTACCCATACGTGAGTGAAATCGGGAGCACTTCAGGGGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:860:1158:1281/2
+CACACAAACAACCTCTTTATATAGAGGCCTTATTCCGGGGGCGGTATTCCCATTGTGCCATAAATCCCATAGCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:861:4156:4281/2
+GTTCAATCGCCTTCTATCTATACCCCTAATTTTGAGGAGATAGTTCAAACACTTACTCTTAGCGTGCTATCGTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:862:4253:4377/2
+CTATCTCCTTAATTCTCGCGCTTCCATCCATGCCCTTATTGTTAGTAGAAACCTTAAGATACACACATAAGTATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:863:6939:7061/2
+GGACTGAGCGGCCACCTCAACCGAGTACCAACTACTGCCTTGCCGACGAGATGTTCAGGAGCCCCTAAGTTCCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:864:3446:3570/2
+AGTTAGCAGTAAGAGATGATCTAGCAGGGTGTAATTCGGGTGGCTGAAAAGCCTACCCGTCTTCGTCTGGCAGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:865:5673:5797/2
+TGAGACAGTTTATTAATGACGGCTAATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:866:9568:9691/2
+GCACAACGCACAGAAGAAACTGGCGCATCATCCTGAAACCTAACAGAACTTAAGAGTAATAGTCTCAGGTTCCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:867:5954:6077/2
+ACCTGATCGCTGCCCCCAATAGTCTCAACCAGTCTCCGGTACGAAGAGCCTATTTGCCGCAAAGATCATGCGGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:868:9421:9545/2
+TATCTCACCCACACAAGCCGTCGTATAACTTCGACCAAGCTTCTCTACGTCCCGCTTGATAAAGTGCTTGTTGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:869:313:436/2
+TGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAACGGGAAGAGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:870:2876:3000/2
+TGCATAGCCAAAACACTACGAACTGCAACATATTTACGACTCATAGGAAGCTCGCGTGGGACAAACGATAACTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:871:5548:5671/2
+GAGACAATAGGATTCTCGCTTTGACTTTGCGCATGGAAAGGAATTAACTGGCACGATAATGTTGTTGTTACGAGGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:872:1103:1226/2
+TGCCATAAATCCCATAGCGGTCTGCGTGTAGATTTTGCTTAAAGGGTCTTGCTACCGCACTCTCCTTTCCGCAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:873:235:359/2
+GTTGAACACTTGCTAGTGGACCGTTATGGCGCCTACATAGAGTCCGCAGCCTTCGTACAATGAGGGTCGTCTTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:874:9116:9240/2
+AGGATCTCATTTAGTGTAGCCCCCGAGGCATGCCAAGCGAACCACATATGTCTACAACTGCCAAGTGAGTTTTCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:875:9596:9722/2
+ATCAAGAGAGCCCGACGTCATTTCACGCTAAGCACAACGCACAGAAGAAACTGGCGCATCATCCTGAAACCTAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:876:102:225/2
+ACGGAACTTCTATCTTCTTGTATCACTGTAAAGTTTGGTGAGTCGGAAAAGGCCGGAAGGAATGCGCTGGGGGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:877:2590:2714/2
+AAAACCAGGGCTCCGATCGGTAGAAGGTCCATTCATCACAGTAGCGGTGACAGTGCATCGTGTGTTAGCTGTCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:878:1942:2065/2
+CCGGCTATGAATTGTCCTCAGCGGCAGGCCCGTCCTCCTTACCATCAGCTCCGTCTTAACGCCGAGATCATATGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:879:47:172/2
+CGGAAGGAATGCGCTGGGGGTGGTTTTATTCCAGCGGTGTTACCGAACAGCCATATCACTCCACGGGCGTGCTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:880:2415:2538/2
+CGCTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:881:7953:8076/2
+CGCTTCGAACCGGCCTATTCCAGATGGTGCTCCTCTAAGATTCCCGTAAGAACACTCATATATCGCTTTCATTATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:882:1845:1969/2
+GGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGAGATGATATATACCATGCGTCTGTATTGAGTAGCTGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:883:2209:2333/2
+GCGAAAGATGTCGATTCCCTTTCAATAAATCGTCCACCGACGCACCTATGTCCCGGAAGTGCAAACATCACCCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:884:974:1098/2
+ATGATTTCACCCCGGGACCTGCCGTGACTAGGTCTTATCCATAGAGTAACGTGGTCTCTTCATTGGCTCGTGAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:885:2455:2577/2
+GGGCTAATGTACAAATGGATGAGTGCGAGAGCTGTGGAACGCTCGTACACGGTCTAAGCACTTCAGCCAGACCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:886:9492:9618/2
+TCTGCTTGACATGCGCTATTACTGTACTCAGATGGTGCGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:887:1052:1176/2
+GCTACCGCACTCTCCTTTCCGCAACCAACTCTCGTACATAGTACCCGTGTAGATTTGGAAATTACGCACAGCACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:888:3733:3858/2
+GACTGAAACGATAGTGTCAAGTTACGCGTCTACTAAGTGAGAGAAGGGTAGCAACAGAACAGGCATGTCGTCACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:889:2481:2602/2
+ACAAAGGTATCGGAAGCCTGACATTGGGCTAATGTACAAATGGATGAGTGCGAGAGCTGTGGAACGCTCGTACACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:890:2550:2672/2
+AGCGGTGACAGTGCATCGTGTGTTAGCTGTCTCTGCACCCGGTTACATTAGTAGGCAGGCTCAACACGGAACAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:891:8791:8915/2
+AAGACTTTTGTCAAAAATTCTGCAGTCGGCCACTCATGGTCTAGGCTGTATACTCGAGTGGTGCATTAACTCACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:892:9533:9656/2
+AAACCTAACAGAACTTAAGAGTAATAGTCTCAGGTTCCTCTGCTTGACATGCGCTATTACTGTACTCAGATGGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:893:8097:8222/2
+CTACCTCGGCGTGCTGGGTTACATCCAGCACCCCGTCAAAAATATCGCTCAGGGAAGACGGTCCTCACGAGAGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:894:6162:6287/2
+TCTATCGCTGTGCTGTACTTTCAATGCCGGCCCCCATGTGGCTCATCAATTGTAAATACGAGATAGTTGATACCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:895:5044:5168/2
+CCAGAATTGGCCTCTTGCTCCTATAATAACCAGCAGTAGAGGCATCTGTGCGAGGGTACCTCATCAGGACCCAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:896:1555:1680/2
+GTGCCCGTATTGTTGATCGCCTTTCCGACAGATCCACGGGGCAATCTGCTGGCGGCGACGTTGCGCACTAGATGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:897:2216:2339/2
+TCGAGCGCGAAAGATGTCGATTCCCTTTCAATAAATCGTCCACCGACGCACCTATGTCCCGGAAGTGCAAACATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:898:797:920/2
+CTAGCAAGAATGTGTGGTTGAGGTATCCTTAATCAGGCCTCATGCACAAGTATCACTAAACAGGATTCAGAGTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:899:5961:6084/2
+CTCAATTACCTGATCGCTGCCCCCAATAGTCTCAACCAGTCTCCGGTACGAAGAGCCTATTTGCCGCAAAGATCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:900:4875:4997/2
+TTCGTCAGCGGAATACGTCAGTCTTCGGTTTACTTCAGAAGACCAAATAGCCTATAAACTCAGGATATGGTCTATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:901:6811:6933/2
+TCCTAGTTCTTCGTATTGAATGCATGTAAGAGTCGGACGTCGTCATCTGACGCAGCGACGCATCCCGTTACATAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:902:4987:5110/2
+CCTCATCAGGACCCAACCAGAGTCTCTCGTTAAGAGATAAGGACCACTGGACAAGTTCTGGCGTTGACTCGCAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:903:1801:1925/2
+ATATACCATGCGTCTGTATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAATCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:904:2841:2964/2
+CGACTCATAGGAAGCTCGCGTGGGACAAACGATAACTCTTGGGATTTATGATCACCGCGGCCGCCTTGTGTAGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:905:3718:3843/2
+GTCAAGTTACGCGTCTACTAAGTGAGAGAAGGGTAGCAACAGAACAGGCATGTCGTCACGTATCTCTACAAATTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:906:6195:6319/2
+TCAAACATCGCGCGCCGAGCAAACGATAGTGTTCTATCGCTGTGCTGTACTTTCAATGCCGGCCCCCATGTGGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:907:881:1003/2
+TGGTTTGGTCTCTTTTGCCAGATGCGTTTGGTGAATGGAGATAATCACATCGACACAGTCACATCCTCACATAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:908:7247:7372/2
+TAAGTAGAATGCAGACTGTCATTTAGTACTACAGTAATTGTGATTCGTGAGTCTAGTGCAGCCATGAAACTGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:909:5849:5971/2
+ATAGAACTCACGCATTGGGTCCTGGGGCTACCTGGACCGGCCAATAGCCCCAAAGGACCCCAGATCAGTTGGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:910:2963:3087/2
+ATACACTTGCGTTCAGCCTTGAACAAAGTGGAAAACTCCCCGGACGCCCCGGTGTGTATGCTACGTCCCTGACAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:911:6423:6546/2
+GGTAAGGCTGGAACGTTGCAACTTATTATCCCAGGAGCATACGAACTCTGCTAGTGTTCTTGGCTATAGGTTTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:912:3860:3983/2
+CTCGGCTGGACGCTTTTGAATAGTGCCCCCGCTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTGTAGCGTTTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:913:5461:5585/2
+AATGTGGTTCGCGCGCGCCTCGACCCCTTTGCCGCGAGCCTGTACCTGCAACATTCTCCTCCCGTGACGGCACTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:914:8315:8438/2
+GGGGTGCGTCCATACCTACTGCTCCAATGAGCCTTAGGATGCTCTGGGCAGTTAACTTGGCAACACTACCACACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:915:2416:2540/2
+AACGCTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:916:1883:2007/2
+ACGCCGAGATCATATGCGCTTACATGCCGCGCGATCCGGGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:917:596:720/2
+CGGTTGAGCATTGAAGAGTCATGCACGTCCAATGTGTATTGTTACCGGAACACAAGAGCTGAGTAGCACTTGCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:918:5411:5534/2
+CATTCTCCTCCCGTGACGGCACTATCGGTTTTTGTAAATATACGGCGTACGTATTCAGCAGCCACTCTAGGCAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:919:1727:1850/2
+TGACGTTACTGGGCGCGCGCGTAGAATTGACTTTGTTAAAAAGAGCGCGAGCGGACTACCTTTCGACATGTTTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:920:7436:7559/2
+CATGTCGCGGACGGCGGGAACGCCGGTCTGGATATGGTAATAGTTGCTCTTTGTCCGGTATTCTGTGAAACCCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:921:6510:6631/2
+ACGGCAACAGTTCCTTATCTGTACGCAGTCTTTTGTACAATACATGTCTGAGAAAACAAGAAATCGACTATGACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:922:2356:2479/2
+ATGGTAAGAGCATTTGGGGATGGCGCAAGTTAAGTACCTAATTTACCTCTCTTCCCGTGTGAATTGTAAACCCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:923:2622:2745/2
+TCTATTGCAATTATCTCCACATATTAAAGCCAAAACCAGGGCTCCGATCGGTAGAAGGTCCATTCATCACAGTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:924:803:925/2
+TGCGTCTAGCAAGAATGTGTGGTTGAGGTATCCTTAATCAGGCCTCATGCACAAGTATCACTAAACAGGATTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:925:6271:6392/2
+TGAGCTGAAGATCAGCTGCGATACATCTAAAGATAAACGGAACAATCCAGCACCCTCATTTCGGTGGTCCTACTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:926:4015:4138/2
+TATCGGTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCATATAAATAAGGAACCGCTCACAGTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:927:2209:2333.dup.2/2
+GCGAAAGATGTCGATTCCCTTTCAATAAATCGTCCACCGACGCACCTATGTCCCGGAAGTGCAAACATCACCCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:928:4954:5077/2
+GAGATAAGGACCACTGGACAAGTTCTGGCGTTGACTCGCAGGGAGCGGAGTGGAATGATTTCTGGGTAGAACCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:929:431:555/2
+CGGGCGTAGAAACGACCAAGTGGCGGTTGAGCGAACACTATCCGACAGACGTTAGTACAGTCATCCCCAAGATCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:930:3416:3541/2
+TGTAATTCGGGTGGCTGAAAAGCCTACCCGTCTTCGTCTGGCAGGGTACTCTATACCTCACGAATCCAGGGTCGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:931:3703:3826/2
+CTAAGTGAGAGAAGGGTAGCAACAGAACAGGCATGTCGTCACGTATCTCTACAAATTTCGGAGCGTAATAATCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:932:2414:2537/2
+GCTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:933:5320:5443/2
+TAACTTCCGCTGTTCAAATGTTATAGCTTTAAGAGTCGTACTTATATGCGGCTGCTAGATTTCGATCTGTCACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:934:8084:8207/2
+GGGTTACATCCAGCACCCCGTCAAAAATATCGCTCAGGGAAGACGGTCCTCACGAGAGTGGCCTAGGTTGATGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:935:1797:1921/2
+ACCATGCGTCTGTATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAATCTCTGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:936:3673:3796/2
+GCATGTCGTCACGTATCTCTACAAATTTCGGAGCGTAATAATCCTGACCGTGACGTTACAAACTTGGCGTATTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:937:9481:9605/2
+CGCTATTACTGTACTCAGATGGTGCGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTATCTCACCCACACAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:938:415:538/2
+AAGTGGCGGTTGAGCGAACACTATCCGACAGACGTTAGTACAGTCATCCCCAAGATCGGCTTCTAATCGGCACTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:939:6741:6865/2
+TACATAGATCGGGAACTCAGAAGGATTAGGGTGGGCAGAGCTGCTGCTGAGATGGTTTACCGATATAATTGACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:940:9091:9213/2
+GCATGCCAAGCGAACCACATATGTCTACAACTGCCAAGTGAGTTTTCGGTCAATTATTTCAGTAATAGAGACCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:941:975:1099/2
+CATGATTTCACCCCGGGACCTGCCGTGACTAGGTCTTATCCATAGAGTAACGTGGTCTCTTCATTGGCTCGTGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:942:2393:2517/2
+CTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTTGGGGATGGCGCAAGTTAAGTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:943:4069:4191/2
+TGCCGCCGAAAATCCTCACGCATGGGGCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:944:2707:2831/2
+AAGCACTATATTACGACCGGGAGTGCAAAAAACAAAGATATGATGGCTCGTCCGAATCGGGTGAATTTGAGTGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:945:8809:8933/2
+TGCCAATCTCTGGTAAAGAAGACTTTTGTCAAAAATTCTGCAGTCGGCCACTCATGGTCTAGGCTGTATACTCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:946:5490:5614/2
+AATGTTGTTGTTACGAGGCCTGGCATCACAATGTGGTTCGCGCGCGCCTCGACCCCTTTGCCGCGAGCCTGTACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:947:2420:2544/2
+GTGGAACGCTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:948:3719:3842/2
+TCAAGTTACGCGTCTACTAAGTGAGAGAAGGGTAGCAACAGAACAGGCATGTCGTCACGTATCTCTACAAATTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:949:1249:1372/2
+CGCAAAACGTTTATTTACATAACCCCTTGTCTTAGTTCGAGACGATGAAACCGTATTCACCGATGCCCGAATCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:950:5238:5362/2
+CGAACGTCAGTTAGACGGTGGTCGTTCAGCAACCCTGGAGCACTGGACATTTGGGATCAGGGAGCTACTACGCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:951:168:293/2
+TCGTCTTATAGTATTTGCGACGCTTTACAGAAGTCGGCAACAGAAAAGTGATCGGAGCCTTGGACAGAACGGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:952:2305:2429/2
+CTTCCCGTGTGAATTGTAAACCCAGGTAAATATACAATGAACGCACCTTTACCTTTGTCCCATCCGGCAATGTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:953:7399:7523/2
+GTAATAGTTGCTCTTTGTCCGGTATTCTGTGAAACCCTATGTCCTTTGTGACTCCGTTGTTATGGTATGTAACCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:954:5564:5686/2
+CACCAGGAAAAGCATGAGACAATAGGATTCTCGCTTTGACTTTGCGCATGGAAAGGAATTAACTGGCACGATAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:955:4966:5088/2
+TCTCTCGTTAAGAGATAAGGACCACTGGACAAGTTCTGGCGTTGACTCGCAGGGAGCGGAGTGGAATGATTTCTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:956:2123:2247/2
+GGCAGGGTGGATCTAGTACTCAGGCCGTTCTCATTGTTACCTGGCATTATGCAGAAGATAGCGGGGTAGCACTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:957:7050:7175/2
+TAGCTACATAGGATTGTGACGAGACCCGCTTTCTTTCCAACGAATGAGCTTCTTGTAGTACTTACGGTGTGGCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:958:9277:9401/2
+GGAATTAAGCGGCCCGTGTGCGAGTTTCAGTCAAGGAATCGGGTCTGTTCAGCATAACTTGAGATCCTCATAAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:959:6073:6196/2
+CGGTCATTCCGGGGTCGAAACTGCCCGATGAGGTCCCGCATCTCTCACTGCCGCAACACTAGTTGTGTCACTCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:960:7438:7562/2
+TCGCATGTCGCGGACGGCGGGAACGCCGGTCTGGATATGGTAATAGTTGCTCTTTGTCCGGTATTCTGTGAAACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:961:2865:2989/2
+AACACTACGAACTGCAACATATTTACGACTCATAGGAAGCTCGCGTGGGACAAACGATAACTCTTGGGATTTATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:962:717:842/2
+ATGCACTCGGCGTATAGAAAATGGGCTGACTATCAGACAAACAGCTATTCACGGCATCCCGCCTCGTGCCCGAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:963:9389:9513/2
+GACCAAGCTTCTCTACGTCCCGCTTGATAAAGTGCTTGTTGGGTTCTACAAATTCAATGTTACCCTGCTACCGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:964:1486:1610/2
+GATGGTTGTACGCTTAATTTAACATAGCCACACCTGATGGCCGCGCGGCTGTAGGACTCGGGTCCGTCAGGTGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:965:242:365/2
+GAGTCGGTTGAACACTTGCTAGTGGACCGTTATGGCGCCTACATAGAGTCCGCAGCCTTCGTACAATGAGGGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:966:2861:2984/2
+TACGAACTGCAACATATTTACGACTCATAGGAAGCTCGCGTGGGACAAACGATAACTCTTGGGATTTATGATCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:967:8279:8402/2
+GGATGCTCTGGGCAGTTAACTTGGCAACACTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:968:8785:8907/2
+TGTCAAAAATTCTGCAGTCGGCCACTCATGGTCTAGGCTGTATACTCGAGTGGTGCATTAACTCACGGACCGAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:969:5622:5746/2
+TCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:970:6712:6834/2
+TGGGCAGAGCTGCTGCTGAGATGGTTTACCGATATAATTGACGGGCCATGTTTATGGTACGGTTGTTCGCATTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:971:2093:2216/2
+CATTGTTACCTGGCATTATGCAGAAGATAGCGGGGTAGCACTGAAAAGACTCCGTACCCCGCAATGATGCGACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:972:4089:4212/2
+TCGTTACCACAGACTGCTAATTGCCGCCGAAAATCCTCACGCATGGGGCGACAAATCGTGAATTACCTGGCGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:973:2782:2907/2
+CGGCCGCCTTGTGTAGCTCGTTCTGAGATAATCAAACACGTCAAAGACCAGGAGCCCTCAATTCAACCGAGATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:974:3341:3465/2
+ACTGTGCTTGCTGTCTTTACCTAAGCCTCAAATGGTACCTCACCCTGATGCAGGACGGAAGTCGACACCTAAAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:975:7962:8085/2
+TGCCACAGCCGCTTCGAACCGGCCTATTCCAGATGGTGCTCCTCTAAGATTCCCGTAAGAACACTCATATATCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:976:4310:4433/2
+AATTAGGTACTCCGAGATTCTCGCGGGCTAAGCTAAAAACCGCAACAGCTTCGATGCTATCTCCTTAATTCTCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:977:8781:8904/2
+CAAAAATTCTGCAGTCGGCCACTCATGGTCTAGGCTGTATACTCGAGTGGTGCATTAACTCACGGACCGAGGGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:978:5874:6000/2
+AGATTGCAACCTCTTGGCGACACCTTATAATAGAACTCACGCATTGGGTCCTGGGGCTACCTGGACCGGCCAATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:979:4160:4281/2
+GTTCAATCGCCTTCTATCTATACCCCTAATTTTGAGGAGATAGTTCAAACACTTACTCTTAGCGTGCTATCGTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:980:4871:4994/2
+GTCAGCGGAATACGTCAGTCTTCGGTTTACTTCAGAAGACCAAATAGCCTATAAACTCAGGATATGGTCTATTGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:981:7256:7379/2
+TAAGCGCTAAGTAGAATGCAGACTGTCATTTAGTACTACAGTAATTGTGATTCGTGAGTCTAGTGCAGCCATGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:982:3253:3378/2
+GCCATTTTTCAGTTAATAACAGAAAATACTAATTCGTGCGTGAAGACAGCTCCAATTGACATCGACAGACATGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:983:492:616/2
+TGCCTGCAATGCTAAGTTTCGAGGAGGATCCTAGCCGTAGACTAGGAGGCGCTCAGCACCACGGGCGTAGAAACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:984:3870:3993/2
+GCACGTAGAACTCGGCTGGACGCTTTTGAATAGTGCCCCCGCTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:985:8907:9031/2
+AAAATCCATGACGATCGTCTAGGAATGTCGGGACGTGCCCTCCACAGCTATACTTCGCGCCCACCCGACTGGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:986:1003:1125/2
+GATTTGGAAATTACGCACAGCACATCCATGATTTCACCCCGGGACCTGCCGTGACTAGGTCTTATCCATAGAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:987:4877:5001/2
+ACGCTTCGTCAGCGGAATACGTCAGTCTTCGGTTTACTTCAGAAGACCAAATAGCCTATAAACTCAGGATATGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:988:1480:1603/2
+GTACGCTTAATTTAACATAGCCACACCTGATGGCCGCGCGGCTGTAGGACTCGGGTCCGTCAGGTGTCCCCACGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:989:2353:2477/2
+GGTAAGAGCATTTGGGGATGGCGCAAGTTAAGTACCTAATTTACCTCTCTTCCCGTGTGAATTGTAAACCCAGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:990:4799:4923/2
+TTGTCGTAATAAACAAAAATCGATTCGACGTCCGTGATGCAAAGATCTCCGTACAAGAAAAACGTTTGTGGGATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:991:3427:3550/2
+CTAGCAGGGTGTAATTCGGGTGGCTGAAAAGCCTACCCGTCTTCGTCTGGCAGGGTACTCTATACCTCACGAATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:992:2450:2574/2
+CTAATGTACAAATGGATGAGTGCGAGAGCTGTGGAACGCTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:993:5533:5655/2
+CGCTTTGACTTTGCGCATGGAAAGGAATTAACTGGCACGATAATGTTGTTGTTACGAGGCCTGGCATCACAATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:994:6536:6660/2
+AGCTATGAAGTCGGTGTCAATGATGAATCACGGCAACAGTTCCTTATCTGTACGCAGTCTTTTGTACAATACATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:995:8302:8425/2
+ACCTACTGCTCCAATGAGCCTTAGGATGCTCTGGGCAGTTAACTTGGCAACACTACCACACATGGTTTAAAGCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:996:1785:1908/2
+ATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAATCTCTGACGTTACTGGGCGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:997:1199:1322/2
+CCGTATTCACCGATGCCCGAATCATATATGACTTATCTGTCCACACAAACAACCTCTTTATATAGAGGCCTTATTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:998:9469:9594/2
+TACTCAGATGGTGCGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTATCTCACCCACACAAGCCGTCGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:999:2366:2489/2
+GCTTGCTATTATGGTAAGAGCATTTGGGGATGGCGCAAGTTAAGTACCTAATTTACCTCTCTTCCCGTGTGAATTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1000:4251:4376/2
+TATCTCCTTAATTCTCGCGCTTCCATCCATGCCCTTATTGTTAGTAGAAACCTTAAGATACACACATAAGTATGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1001:1707:1832/2
+GCGTAGAATTGACTTTGTTAAAAAGAGCGCGAGCGGACTACCTTTCGACATGTTTTCATACCGTGCCGGCCGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1002:2181:2304/2
+TCGTCCACCGACGCACCTATGTCCCGGAAGTGCAAACATCACCCTATCTCAGCCCCGGGCAGGGTGGATCTAGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1003:9296:9419/2
+TAATCTCACACTATGAACGGAATTAAGCGGCCCGTGTGCGAGTTTCAGTCAAGGAATCGGGTCTGTTCAGCATAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1004:1938:2060/2
+TATGAATTGTCCTCAGCGGCAGGCCCGTCCTCCTTACCATCAGCTCCGTCTTAACGCCGAGATCATATGCGCTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1005:7169:7293/2
+AGGAAATTAATTGTTATGGTCACGCAATCCCCCCAGCAACGGACGATGGGCGACGTTTGACTAGATGTTTATGCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1006:2245:2370/2
+CCATCCGGCAATGTTAATACCCGTTCTAACGTCGAGCGCGAAAGATGTCGATTCCCTTTCAATAAATCGTCCACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1007:355:477/2
+TCTAATCGGCACTCGCGATAATTACTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1008:6834:6959/2
+ATCCTCCTAATAGGCACGATGGGGGGTCCTAGTTCTTCGTATTGAATGCATGTAAGAGTCGGACGTCGTCATCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1009:8856:8978/2
+TTCGCGCCCACCCGACTGGTAACAGCACCATGACCAACGCCGGGCTGCCAATCTCTGGTAAAGAAGACTTTTGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1010:8269:8393/2
+GGGCAGTTAACTTGGCAACACTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1011:1855:1977/2
+GCGATCCGGGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGAGATGATATATACCATGCGTCTGTATTGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1012:1533:1656/2
+CCGACAGATCCACGGGGCAATCTGCTGGCGGCGACGTTGCGCACTAGATGGTTGTACGCTTAATTTAACATAGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1013:6500:6623/2
+AGTTCCTTATCTGTACGCAGTCTTTTGTACAATACATGTCTGAGAAAACAAGAAATCGACTATGACGAGCATCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1014:6893:7019/2
+CCGACGAGATGTTCAGGAGCCCCTAAGTTCCGGGGAAAGAAACTCCTTAATGCTGTTGCAATCCTCCTAATAGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1015:3361:3484/2
+TCACGAATCCAGGGTCGGGACTGTGCTTGCTGTCTTTACCTAAGCCTCAAATGGTACCTCACCCTGATGCAGGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1016:2457:2583/2
+GACATTGGGCTAATGTACAAATGGATGAGTGCGAGAGCTGTGGAACGCTCGTACACGGTCTAAGCACTTCAGCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1017:5193:5316/2
+ACATTTGGGATCAGGGAGCTACTACGCTGGACATGTCGTTTGAAGGAGGGGTTCGTGACTTGCTATCACGCGTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1018:2120:2243/2
+GGGTGGATCTAGTACTCAGGCCGTTCTCATTGTTACCTGGCATTATGCAGAAGATAGCGGGGTAGCACTGAAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1019:4506:4630/2
+ATGTGTAAAGACTCGGGGCCGCGATATAGAAAGAGCCCTAACACGGGGTAGGATAAATGCACGCTTCACACATGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1020:2760:2883/2
+GAGATAATCAAACACGTCAAAGACCAGGAGCCCTCAATTCAACCGAGATCGAAAGCACTATATTACGACCGGGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1021:1156:1279/2
+CACAAACAACCTCTTTATATAGAGGCCTTATTCCGGGGGCGGTATTCCCATTGTGCCATAAATCCCATAGCGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1022:5625:5747/2
+TTCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1023:3974:4098/2
+TTTGCTGCATATAAATAAGGAACCGCTCACAGTCTTCAAGTCCGGCAGGTCAACCAACGCAGACATGAACCTCACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1024:7400:7523/2
+GTAATAGTTGCTCTTTGTCCGGTATTCTGTGAAACCCTATGTCCTTTGTGACTCCGTTGTTATGGTATGTAACCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1025:2030:2154/2
+AATGATGCGACGGGCTACTAGGTCTTTTACTCACTTAGGCGGCCGCGCTGCTTTGGGTGGCAAAGGCACGTGTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1026:4502:4627/2
+TGTAAAGACTCGGGGCCGCGATATAGAAAGAGCCCTAACACGGGGTAGGATAAATGCACGCTTCACACATGCGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1027:7657:7780/2
+CTTAGGGGTTCATCACGTTGCGGTGCGCCTTGCGGATGGATGTGCTATTACACCGGCTCTACATCGGTCGCGCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1028:8111:8235/2
+TAGAGCGACACGGCTACCTCGGCGTGCTGGGTTACATCCAGCACCCCGTCAAAAATATCGCTCAGGGAAGACGGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1029:9055:9178/2
+AAGTGAGTTTTCGGTCAATTATTTCAGTAATAGAGACCTATTCTCCTATACGGAAGTGTAGTCATGAGCGCAGCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1030:7634:7758/2
+GTGCGCCTTGCGGATGGATGTGCTATTACACCGGCTCTACATCGGTCGCGCCCCGATTTCCGAAGAATCTAATGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1031:6926:7051/2
+GCCACCTCAACCGAGTACCAACTACTGCCTTGCCGACGAGATGTTCAGGAGCCCCTAAGTTCCGGGGAAAGAAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1032:6083:6206/2
+CTAGGTTCGCCGGTCATTCCGGGGTCGAAACTGCCCGATGAGGTCCCGCATCTCTCACTGCCGCAACACTAGTTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1033:8717:8842/2
+CGGACCGAGGGGATCGGCCAACATACTAGAGAGCAGGAGGATCTATACTATCGTATTAGTTTTTTTTCAATGAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1034:5729:5851/2
+TAGGAGTTCGAGTTGGCTTCGATCGCAAATGTTGGATCTTCTTCTACATCGCCGTGAGACAGTTTATTAATGACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1035:7674:7798/2
+ACCGGTGCATCAGAACACCTTAGGGGTTCATCACGTTGCGGTGCGCCTTGCGGATGGATGTGCTATTACACCGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1036:8356:8479/2
+ACTTCCACTACCCATACGTGAGTGAAATCGGGAGCACTTCAGGGGTGCGTCCATACCTACTGCTCCAATGAGCCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1037:7220:7344/2
+CTACAGTAATTGTGATTCGTGAGTCTAGTGCAGCCATGAAACTGTAACCCGAGGAAATTAATTGTTATGGTCACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1038:3427:3549/2
+TAGCAGGGTGTAATTCGGGTGGCTGAAAAGCCTACCCGTCTTCGTCTGGCAGGGTACTCTATACCTCACGAATCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1039:7985:8107/2
+TCAGAGAGCATGTTGTCTTTTGTGCCACAGCCGCTTCGAACCGGCCTATTCCAGATGGTGCTCCTCTAAGATTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1040:5909:6032/2
+GAGCCTATTTGCCGCAAAGATCATGCGGCCATAGATTGCAACCTCTTGGCGACACCTTATAATAGAACTCACGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1041:9741:9865/2
+GCTCTCTTGAGCGCCCGGTTACATAGTGATAAGCGCTCCATGGGCGGACAGGCCAACCGGAGCGTCATACTCATAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1042:2165:2290/2
+ACCTATGTCCCGGAAGTGCAAACATCACCCTATCTCAGCCCCGGGCAGGGTGGATCTAGTACTCAGGCCGTTCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1043:5330:5454/2
+CGACCCTCATCTAACTTCCGCTGTTCAAATGTTATAGCTTTAAGAGTCGTACTTATATGCGGCTGCTAGATTTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1044:1454:1579/2
+ACCTGATGGCCGCGCGGCTGTAGGACTCGGGTCCGTCAGGTGTCCCCACGTGCATTTTCGGGGAGAGGCCCGGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1045:5865:5990/2
+CTCTTGGCGACACCTTATAATAGAACTCACGCATTGGGTCCTGGGGCTACCTGGACCGGCCAATAGCCCCAAAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1046:7489:7613/2
+TTCATCTGGCAACTTTCTGCGACGAAATCCAAACCTTCCTCCCAAGCCCCTTCGCATGTCGCGGACGGCGGGAACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1047:6920:7044/2
+CAACCGAGTACCAACTACTGCCTTGCCGACGAGATGTTCAGGAGCCCCTAAGTTCCGGGGAAAGAAACTCCTTAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1048:2839:2962/2
+ACTCATAGGAAGCTCGCGTGGGACAAACGATAACTCTTGGGATTTATGATCACCGCGGCCGCCTTGTGTAGCTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1049:2218:2341/2
+CGTCGAGCGCGAAAGATGTCGATTCCCTTTCAATAAATCGTCCACCGACGCACCTATGTCCCGGAAGTGCAAACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1050:2936:3060/2
+GTGGAAAACTCCCCGGACGCCCCGGTGTGTATGCTACGTCCCTGACAACGATTCGAACATTGCATAGCCAAAACAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1051:5899:6023/2
+TGCCGCAAAGATCATGCGGCCATAGATTGCAACCTCTTGGCGACACCTTATAATAGAACTCACGCATTGGGTCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1052:4218:4340/2
+ATTGTTAGTAGAAACCTTAAGATACACACATAAGTATGGGTTAGACGTGCGCTAGAGCCGTTCAATCGCCTTCTAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1053:6126:6251/2
+TGTGGCTCATCAATTGTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTTCGCCGGTCATTCCGGGGTCGAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1054:6114:6236/2
+GTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTTCGCCGGTCATTCCGGGGTCGAAACTGCCCGATGAGGTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1055:2172:2297/2
+CCGACGCACCTATGTCCCGGAAGTGCAAACATCACCCTATCTCAGCCCCGGGCAGGGTGGATCTAGTACTCAGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1056:9458:9581/2
+CGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTATCTCACCCACACAAGCCGTCGTATAACTTCGACCAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1057:5658:5781/2
+TGACGGCTAATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1058:3379:3503/2
+TGGCAGGGTACTCTATACCTCACGAATCCAGGGTCGGGACTGTGCTTGCTGTCTTTACCTAAGCCTCAAATGGTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1059:5362:5485/2
+CGTATTCAGCAGCCACTCTAGGCAGACTTATCGACCCTCATCTAACTTCCGCTGTTCAAATGTTATAGCTTTAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1060:9145:9269/2
+TATGGTACCGTGCTGGGGCTTCAACTATAAGGATCTCATTTAGTGTAGCCCCCGAGGCATGCCAAGCGAACCACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1061:8962:9085/2
+GCGTAGGTGCCATATAGTGAACTCTGCGGAACTCGATAGCGTATGCGTGCGTTCAAAATCCATGACGATCGTCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1062:1464:1587/2
+ATAGCCACACCTGATGGCCGCGCGGCTGTAGGACTCGGGTCCGTCAGGTGTCCCCACGTGCATTTTCGGGGAGAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1063:371:495/2
+TCATCCCCAAGATCGGCTTCTAATCGGCACTCGCGATAATTACTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1064:9276:9399/2
+AATTAAGCGGCCCGTGTGCGAGTTTCAGTCAAGGAATCGGGTCTGTTCAGCATAACTTGAGATCCTCATAAGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1065:1983:2105/2
+GCTTTGGGTGGCAAAGGCACGTGTCCATGAGGTATAATGTCCGGCTATGAATTGTCCTCAGCGGCAGGCCCGTCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1066:1548:1672/2
+ATTGTTGATCGCCTTTCCGACAGATCCACGGGGCAATCTGCTGGCGGCGACGTTGCGCACTAGATGGTTGTACGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1067:9202:9324/2
+AGGTAGCCTATCGGATGGGGGGGCTAAGCGTTGGCACAGTTACGCCGAAGTTATATATGGTACCGTGCTGGGGCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1068:7510:7634/2
+GAAGTTAAATCCGTGTGACTTTTCATCTGGCAACTTTCTGCGACGAAATCCAAACCTTCCTCCCAAGCCCCTTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1069:8347:8472/2
+CTACCCATACGTGAGTGAAATCGGGAGCACTTCAGGGGTGCGTCCATACCTACTGCTCCAATGAGCCTTAGGATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1070:3933:4057/2
+CCGGCAGGTCAACCAACGCAGACATGAACCTCACCAGCAGTGGTTTTGTGTTCATTCAGAGATTGCACGTAGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1071:2587:2711/2
+ACCAGGGCTCCGATCGGTAGAAGGTCCATTCATCACAGTAGCGGTGACAGTGCATCGTGTGTTAGCTGTCTCTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1072:7780:7903/2
+CCACAATAATTGGAAGTGTTACGTGCGGGTGCATACGGATAATATATCGATACAGAGCCGATCGTGATCAATTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1073:6992:7116/2
+ACTTACGGTGTGGCTACGCACTAATTATTCATAGAACTAGCATTCAAATTGAGTAGGACTGAGCGGCCACCTCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1074:6667:6790/2
+GCCATGTTTATGGTACGGTTGTTCGCATTACTCTCGGTTCGCACTCAGAGTTGAGACACAAGCGTACCTTATGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1075:2413:2536/2
+CTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTTGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1076:4985:5108/2
+TCATCAGGACCCAACCAGAGTCTCTCGTTAAGAGATAAGGACCACTGGACAAGTTCTGGCGTTGACTCGCAGGGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1077:8357:8480/2
+AACTTCCACTACCCATACGTGAGTGAAATCGGGAGCACTTCAGGGGTGCGTCCATACCTACTGCTCCAATGAGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1078:6607:6732/2
+CAAGCGTACCTTATGGCCGCCTCCAACATGCCGGCTAATATGAACTCAAAAGTGTCTCGGTTGTGGAAAATGAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1079:7988:8111/2
+GAGCTCAGAGAGCATGTTGTCTTTTGTGCCACAGCCGCTTCGAACCGGCCTATTCCAGATGGTGCTCCTCTAAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1080:1796:1920/2
+CCATGCGTCTGTATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAATCTCTGACGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1081:9713:9837/2
+ATAAGCGCTCCATGGGCGGACAGGCCAACCGGAGCGTCATACTCATACTTGCGGCAGACACAGAAGTGAGTGCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1082:6173:6297/2
+ACGATAGTGTTCTATCGCTGTGCTGTACTTTCAATGCCGGCCCCCATGTGGCTCATCAATTGTAAATACGAGATAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1083:9367:9491/2
+CTTGATAAAGTGCTTGTTGGGTTCTACAAATTCAATGTTACCCTGCTACCGGTCCCCTAAGTTTACTCATTATAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1084:2124:2245/2
+CAGGGTGGATCTAGTACTCAGGCCGTTCTCATTGTTACCTGGCATTATGCAGAAGATAGCGGGGTAGCACTGAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1085:98:222/2
+GAACTTCTATCTTCTTGTATCACTGTAAAGTTTGGTGAGTCGGAAAAGGCCGGAAGGAATGCGCTGGGGGTGGTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1086:4042:4165/2
+GCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1087:1759:1882/2
+GTCCACTTGCGGAGTGCGGTTGACTAAATCTCTGACGTTACTGGGCGCGCGCGTAGAATTGACTTTGTTAAAAAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1088:5644:5767/2
+CTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1089:3270:3394/2
+AAGATGGCTTGTGAGGGCCATTTTTCAGTTAATAACAGAAAATACTAATTCGTGCGTGAAGACAGCTCCAATTGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1090:3959:4083/2
+TAAGGAACCGCTCACAGTCTTCAAGTCCGGCAGGTCAACCAACGCAGACATGAACCTCACCAGCAGTGGTTTTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1091:2221:2343/2
+AACGTCGAGCGCGAAAGATGTCGATTCCCTTTCAATAAATCGTCCACCGACGCACCTATGTCCCGGAAGTGCAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1092:3203:3326/2
+CAATTGACATCGACAGACATGTAATGTAGTTAGGCCAGTGCAGAACTTCTCGACCTTACCCATTGTCGCGGGAACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1093:8226:8349/2
+TGGATAATGACGGCCCGACACAGCCCCCACTAGTCACACTACGACTCTATAGGAACTCGAGGCATGACGTATAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1094:8245:8371/2
+ACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACTAGTCACACTACGACTCTATAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1095:5648:5772/2
+ATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1096:6960:7083/2
+GAACTAGCATTCAAATTGAGTAGGACTGAGCGGCCACCTCAACCGAGTACCAACTACTGCCTTGCCGACGAGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1097:3855:3979/2
+GCTGGACGCTTTTGAATAGTGCCCCCGCTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTGTAGCGTTTATATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1098:9762:9887/2
+TCTACGTCACTGTGGAAGCTTGGCTCTCTTGAGCGCCCGGTTACATAGTGATAAGCGCTCCATGGGCGGACAGGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1099:8061:8182/2
+AATATCGCTCAGGGAAGACGGTCCTCACGAGAGTGGCCTAGGTTGATGATTTGCGTCGGCGTCGCTATGGTGAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1100:6015:6136/2
+AGTTGTGTCACTCGGAAAGGCCTACCAGGTCTGACTCTTGCTCCATTCGTAGCTCAATTACCTGATCGCTGCCCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1101:9134:9260/2
+GTGCTGGGGCTTCAACTATAAGGATCTCATTTAGTGTAGCCCCCGAGGCATGCCAAGCGAACCACATATGTCTACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1102:3845:3969/2
+TTTGAATAGTGCCCCCGCTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTGTAGCGTTTATATGGCGCCCGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1103:3920:4045/2
+CCAACGCAGACATGAACCTCACCAGCAGTGGTTTTGTGTTCATTCAGAGATTGCACGTAGAACTCGGCTGGACGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1104:581:704/2
+AGTCATGCACGTCCAATGTGTATTGTTACCGGAACACAAGAGCTGAGTAGCACTTGCGGGACGCGTGATACGTAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1105:7944:8068/2
+ACCGGCCTATTCCAGATGGTGCTCCTCTAAGATTCCCGTAAGAACACTCATATATCGCTTTCATTATGACACATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1106:6510:6634/2
+ATCACGGCAACAGTTCCTTATCTGTACGCAGTCTTTTGTACAATACATGTCTGAGAAAACAAGAAATCGACTATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1107:4974:5096/2
+AACCAGAGTCTCTCGTTAAGAGATAAGGACCACTGGACAAGTTCTGGCGTTGACTCGCAGGGAGCGGAGTGGAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1108:7290:7412/2
+AGGAACGGTTGCAGCTGTAGTGGTGCGAGATCATAAGCGCTAAGTAGAATGCAGACTGTCATTTAGTACTACAGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1109:6249:6372/2
+ATACATCTAAAGATAAACGGAACAATCCAGCACCCTCATTTCGGTGGTCCTACTCAAACATCGCGCGCCGAGCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1110:1958:2079/2
+ATGAGGTATAATGTCCGGCTATGAATTGTCCTCAGCGGCAGGCCCGTCCTCCTTACCATCAGCTCCGTCTTAACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1111:486:609/2
+AATGCTAAGTTTCGAGGAGGATCCTAGCCGTAGACTAGGAGGCGCTCAGCACCACGGGCGTAGAAACGACCAAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1112:8944:9068/2
+TGAACTCTGCGGAACTCGATAGCGTATGCGTGCGTTCAAAATCCATGACGATCGTCTAGGAATGTCGGGACGTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1113:233:357/2
+TGAACACTTGCTAGTGGACCGTTATGGCGCCTACATAGAGTCCGCAGCCTTCGTACAATGAGGGTCGTCTTATAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1114:787:911/2
+ATGTGTGGTTGAGGTATCCTTAATCAGGCCTCATGCACAAGTATCACTAAACAGGATTCAGAGTGTCTGATGCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1115:3189:3313/2
+CAGACATGTAATGTAGTTAGGCCAGTGCAGAACTTCTCGACCTTACCCATTGTCGCGGGAACATCTGGTGCATCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1116:2648:2770/2
+TGAATTTGAGTGATAAAATACATGCTCTATTGCAATTATCTCCACATATTAAAGCCAAAACCAGGGCTCCGATCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1117:3960:4083/2
+TAAGGAACCGCTCACAGTCTTCAAGTCCGGCAGGTCAACCAACGCAGACATGAACCTCACCAGCAGTGGTTTTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1118:4759:4884/2
+CAAAGATCTCCGTACAAGAAAAACGTTTGTGGGATACGCCCATGTACCCAAATAACCGAATGATGGTACTCATGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1119:5605:5727/2
+GAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCATGAGACAATAGGATTCTCGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1120:6810:6935/2
+GGTCCTAGTTCTTCGTATTGAATGCATGTAAGAGTCGGACGTCGTCATCTGACGCAGCGACGCATCCCGTTACATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1121:7096:7218/2
+AGGATTTGTGCTCGTAAGCCTATGTTTTAGTCCATCATCAATTTAGCTACATAGGATTGTGACGAGACCCGCTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1122:2005:2128/2
+TTACTCACTTAGGCGGCCGCGCTGCTTTGGGTGGCAAAGGCACGTGTCCATGAGGTATAATGTCCGGCTATGAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1123:6798:6920/2
+TATTGAATGCATGTAAGAGTCGGACGTCGTCATCTGACGCAGCGACGCATCCCGTTACATAGATCGGGAACTCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1124:5682:5806/2
+ACATCGCCGTGAGACAGTTTATTAATGACGGCTAATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1125:1807:1930/2
+ATGATATATACCATGCGTCTGTATTGAGTAGCTGACGTAAGTCTTATCGTCCACTTGCGGAGTGCGGTTGACTAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1126:939:1061/2
+TCCATAGAGTAACGTGGTCTCTTCATTGGCTCGTGAGCTTCCATCGACGTCCGACCGGTGGTTTGGTCTCTTTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1127:1401:1526/2
+ATTTTCGGGGAGAGGCCCGGCAAATGACATATACAGGCGCGTAGCGTACATGGTTTCTCATTGGGTTTGCCGGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1128:8844:8968/2
+CCCGACTGGTAACAGCACCATGACCAACGCCGGGCTGCCAATCTCTGGTAAAGAAGACTTTTGTCAAAAATTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1129:5624:5749/2
+AGTTCGGGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1130:1709:1833/2
+CGCGTAGAATTGACTTTGTTAAAAAGAGCGCGAGCGGACTACCTTTCGACATGTTTTCATACCGTGCCGGCCGGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1131:5063:5187/2
+ATTTCGAATAGCAAAACTTCCAGAATTGGCCTCTTGCTCCTATAATAACCAGCAGTAGAGGCATCTGTGCGAGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1132:5134:5257.dup.2/2
+TTGCTATCACGCGTACATAGAGACTGTGTTTCCGCGGCCGGTCCATGCGCTTGTTCCTCTATCCTGTAGGATTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1133:3498:3621/2
+ACTTCCTGACTCCAGCTTAGCTATTCCGCATAGATCTTTTATGAGAGAGCGAGTTAGCAGTAAGAGATGATCTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1134:8584:8708/2
+AAATATCCAGTGCGTCTTCTCTTAGGCGGTTGTAACCTTGGGTCGTAAAATCGATCCAATTACTCCGCAATTCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1135:2154:2276/2
+AGTGCAAACATCACCCTATCTCAGCCCCGGGCAGGGTGGATCTAGTACTCAGGCCGTTCTCATTGTTACCTGGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1136:7199:7326/2
+GTGAGTCTAGTGCAGCCATGAAACTGTAACCCGAGGAAATTAATTGTTATGGTCACGCAATCCCCCCAGCAACGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1137:6145:6268/2
+TTCAATGCCGGCCCCCATGTGGCTCATCAATTGTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTTCGCCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1138:2863:2987/2
+CACTACGAACTGCAACATATTTACGACTCATAGGAAGCTCGCGTGGGACAAACGATAACTCTTGGGATTTATGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1139:4172:4295/2
+CGTGCGCTAGAGCCGTTCAATCGCCTTCTATCTATACCCCTAATTTTGAGGAGATAGTTCAAACACTTACTCTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1140:8259:8384/2
+ACTTGGCAACACTACCACACATGGTTTAAAGCCCCTGGATAATGACGGCCCGACACAGCCCCCACTAGTCACACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1141:5606:5731/2
+CTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCATGAGACAATAGGATTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1142:478:602/2
+AGTTTCGAGGAGGATCCTAGCCGTAGACTAGGAGGCGCTCAGCACCACGGGCGTAGAAACGACCAAGTGGCGGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1143:1850:1974/2
+ATCCGGGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGAGATGATATATACCATGCGTCTGTATTGAGTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1144:3643:3767/2
+GGAGCGTAATAATCCTGACCGTGACGTTACAAACTTGGCGTATTCCGCCGCCTTCACCCACTGGTGATAGCAGGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1145:5003:5126/2
+CATCTGTGCGAGGGTACCTCATCAGGACCCAACCAGAGTCTCTCGTTAAGAGATAAGGACCACTGGACAAGTTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1146:3643:3766/2
+GAGCGTAATAATCCTGACCGTGACGTTACAAACTTGGCGTATTCCGCCGCCTTCACCCACTGGTGATAGCAGGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1147:1001:1125/2
+GATTTGGAAATTACGCACAGCACATCCATGATTTCACCCCGGGACCTGCCGTGACTAGGTCTTATCCATAGAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1148:1059:1184/2
+AGGGTCTTGCTACCGCACTCTCCTTTCCGCAACCAACTCTCGTACATAGTACCCGTGTAGATTTGGAAATTACGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1149:9220:9345/2
+ACTTGAGATCCTCATAAGTATAGGTAGCCTATCGGATGGGGGGGCTAAGCGTTGGCACAGTTACGCCGAAGTTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1150:295:418/2
+GCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAACGGGAAGAGTCGGTTGAACACTTGCTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1151:4021:4145/2
+TGGCGTATATCGGTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCATATAAATAAGGAACCGCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1152:6998:7123/2
+TTGTAGTACTTACGGTGTGGCTACGCACTAATTATTCATAGAACTAGCATTCAAATTGAGTAGGACTGAGCGGCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1153:43:166/2
+GAATGCGCTGGGGGTGGTTTTATTCCAGCGGTGTTACCGAACAGCCATATCACTCCACGGGCGTGCTAATTACGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1154:8637:8759/2
+GCTCCGTCTTCCCGTCATGGATTAACATTCCACCGCTGGGGGCGTTGGTTCAAATATCCAGTGCGTCTTCTCTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1155:2423:2547/2
+GCTGTGGAACGCTCGTACACGGTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1156:2069:2192/2
+AGATAGCGGGGTAGCACTGAAAAGACTCCGTACCCCGCAATGATGCGACGGGCTACTAGGTCTTTTACTCACTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1157:936:1058/2
+ATAGAGTAACGTGGTCTCTTCATTGGCTCGTGAGCTTCCATCGACGTCCGACCGGTGGTTTGGTCTCTTTTGCCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1158:7600:7724/2
+CTCTACATCGGTCGCGCCCCGATTTCCGAAGAATCTAATGGGATGAACCGGTATAAAACCCGTTCATGCCCTTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1159:5671:5795/2
+AGACAGTTTATTAATGACGGCTAATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGCCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1160:6577:6701/2
+CGGCTAATATGAACTCAAAAGTGTCTCGGTTGTGGAAAATGAGCTATGAAGTCGGTGTCAATGATGAATCACGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1161:1898:2021/2
+TCAGCTCCGTCTTAACGCCGAGATCATATGCGCTTACATGCCGCGCGATCCGGGGTCTTGGAAAGTTACCCAGGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1162:5349:5473/2
+CCACTCTAGGCAGACTTATCGACCCTCATCTAACTTCCGCTGTTCAAATGTTATAGCTTTAAGAGTCGTACTTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1163:8181:8306/2
+ACTCTATAGGAACTCGAGGCATGACGTATAGTAATTCGCGCCTTCCCGAGGGAGCGATCCGTGCCGGCGTGTAGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1164:8951:9074/2
+ATATAGTGAACTCTGCGGAACTCGATAGCGTATGCGTGCGTTCAAAATCCATGACGATCGTCTAGGAATGTCGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1165:2179:2302/2
+GTCCACCGACGCACCTATGTCCCGGAAGTGCAAACATCACCCTATCTCAGCCCCGGGCAGGGTGGATCTAGTACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1166:4034:4156/2
+CGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCATATAAATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1167:8740:8863/2
+CTCGAGTGGTGCATTAACTCACGGACCGAGGGGATCGGCCAACATACTAGAGAGCAGGAGGATCTATACTATCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1168:4457:4580/2
+GGATAAATGCACGCTTCACACATGCGAAAGCATGGACTTAGGACAGGGCCCGGGGCTGGTGCGGCCGTGACGCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1169:6422:6546/2
+GGTAAGGCTGGAACGTTGCAACTTATTATCCCAGGAGCATACGAACTCTGCTAGTGTTCTTGGCTATAGGTTTACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1170:1897:2020/2
+CAGCTCCGTCTTAACGCCGAGATCATATGCGCTTACATGCCGCGCGATCCGGGGTCTTGGAAAGTTACCCAGGCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1171:2050:2173/2
+AAAAGACTCCGTACCCCGCAATGATGCGACGGGCTACTAGGTCTTTTACTCACTTAGGCGGCCGCGCTGCTTTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1172:8531:8654.dup.2/2
+TCCAATTACTCCGCAATTCTACCATCAGCTATTCCTGCGGTTCACTCCGGGCGTCAGATGAGGTGGCTCGTATTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1173:4249:4372/2
+TCCTTAATTCTCGCGCTTCCATCCATGCCCTTATTGTTAGTAGAAACCTTAAGATACACACATAAGTATGGGTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1174:324:447/2
+TCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1175:431:555.dup.2/2
+CGGGCGTAGAAACGACCAAGTGGCGGTTGAGCGAACACTATCCGACAGACGTTAGTACAGTCATCCCCAAGATCGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1176:1702:1827/2
+GAATTGACTTTGTTAAAAAGAGCGCGAGCGGACTACCTTTCGACATGTTTTCATACCGTGCCGGCCGGTTTGTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1177:7129:7253/2
+GGACGATGGGCGACGTTTGACTAGATGTTTATGCTAGGATTTGTGCTCGTAAGCCTATGTTTTAGTCCATCATCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1178:8621:8745/2
+TCATGGATTAACATTCCACCGCTGGGGGCGTTGGTTCAAATATCCAGTGCGTCTTCTCTTAGGCGGTTGTAACCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1179:5730:5854/2
+GCGTAGGAGTTCGAGTTGGCTTCGATCGCAAATGTTGGATCTTCTTCTACATCGCCGTGAGACAGTTTATTAATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1180:6481:6604/2
+GTCTTTTGTACAATACATGTCTGAGAAAACAAGAAATCGACTATGACGAGCATCTATAGGTAAGGCTGGAACGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1181:8420:8545/2
+GCAGAATATGCTCTACCGTTAATTTTGTGGCGCATCGGCCCCACCGTGCTGTGTATTATAGTAGCAACTTCCACTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1182:3828:3952/2
+CTAAACGCTCTGAAGTAGCTGCTGTCTCCCACGTGTAGCGTTTATATGGCGCCCGAGAAATCTCGATAGTGATGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1183:4347:4470/2
+ATCCTGGAGATTCCACCACCGCGCGTGCGTTCACACAAATTAGGTACTCCGAGATTCTCGCGGGCTAAGCTAAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1184:3012:3136/2
+AAGGTCGCACGTATACTATAGTCTTTGGCAATAATGTAGTCAAGAGTACATACACTTGCGTTCAGCCTTGAACAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1185:8843:8965/2
+GACTGGTAACAGCACCATGACCAACGCCGGGCTGCCAATCTCTGGTAAAGAAGACTTTTGTCAAAAATTCTGCAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1186:331:455/2
+TACTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1187:5237:5361/2
+GAACGTCAGTTAGACGGTGGTCGTTCAGCAACCCTGGAGCACTGGACATTTGGGATCAGGGAGCTACTACGCTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1188:5821:5944/2
+CTACCTGGACCGGCCAATAGCCCCAAAGGACCCCAGATCAGTTGGCGGAAAGGAACAAGCAAACCGACTCTCGCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1189:871:997/2
+GGTCTCTTTTGCCAGATGCGTTTGGTGAATGGAGATAATCACATCGACACAGTCACATCCTCACATAACAAATGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1190:2533:2658/2
+ATCGTGTGTTAGCTGTCTCTGCACCCGGTTACATTAGTAGGCAGGCTCAACACGGAACAAAGGTATCGGAAGCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1191:300:424/2
+TCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAACGGGAAGAGTCGGTTGAACACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1192:6822:6945/2
+CACGATGGGGGGTCCTAGTTCTTCGTATTGAATGCATGTAAGAGTCGGACGTCGTCATCTGACGCAGCGACGCATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1193:1528:1651/2
+AGATCCACGGGGCAATCTGCTGGCGGCGACGTTGCGCACTAGATGGTTGTACGCTTAATTTAACATAGCCACACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1194:114:238/2
+AGCCTTGGACAGAACGGAACTTCTATCTTCTTGTATCACTGTAAAGTTTGGTGAGTCGGAAAAGGCCGGAAGGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1195:7119:7242/2
+GACGTTTGACTAGATGTTTATGCTAGGATTTGTGCTCGTAAGCCTATGTTTTAGTCCATCATCAATTTAGCTACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1196:2990:3114/2
+CTTTGGCAATAATGTAGTCAAGAGTACATACACTTGCGTTCAGCCTTGAACAAAGTGGAAAACTCCCCGGACGCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1197:2272:2395/2
+CAATGAACGCACCTTTACCTTTGTCCCATCCGGCAATGTTAATACCCGTTCTAACGTCGAGCGCGAAAGATGTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1198:194:316/2
+CCGCAGCCTTCGTACAATGAGGGTCGTCTTATAGTATTTGCGACGCTTTACAGAAGTCGGCAACAGAAAAGTGATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1199:5914:6039/2
+GTACGAAGAGCCTATTTGCCGCAAAGATCATGCGGCCATAGATTGCAACCTCTTGGCGACACCTTATAATAGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1200:3049:3172/2
+ATGGGTAAAGGAACACTCATGCAATAGCGTGCCTTTAAGGTCGCACGTATACTATAGTCTTTGGCAATAATGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1201:4397:4521/2
+TGCGGCCGTGACGCAGTTAATATGCCACCTAAACATACGATAGGTCGCCGCATCCTGGAGATTCCACCACCGCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1202:1617:1741/2
+ACATTGGTATAAATGGTGCTTGCAAGTGTACCACCTTGCAATTTAAACCTACGGCGGCTGTGTGCCCGTATTGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1203:291:414/2
+AGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAACGGGAAGAGTCGGTTGAACACTTGCTAGTGGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1204:3000:3124/2
+ATACTATAGTCTTTGGCAATAATGTAGTCAAGAGTACATACACTTGCGTTCAGCCTTGAACAAAGTGGAAAACTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1205:328:453/2
+CTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1206:8599:8720/2
+GGGCGTTGGTTCAAATATCCAGTGCGTCTTCTCTTAGGCGGTTGTAACCTTGGGTCGTAAAATCGATCCAATTACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1207:4606:4732/2
+AGTCTATCGGATGTCACGTCTCTTGCTTTGTGTAACGCTAATTCGGCTATTCAACTGCGTCCCACGCAAGTAGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1208:8999:9124/2
+AGTGTAGTCATGAGCGCAGCGGAACCTCGCGGCCCCTCAGCGTAGGTGCCATATAGTGAACTCTGCGGAACTCGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1209:7533:7657/2
+GCCCTTATCTGCGCGTGGGAGCAGAAGTTAAATCCGTGTGACTTTTCATCTGGCAACTTTCTGCGACGAAATCCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1210:4068:4192/2
+TTGCCGCCGAAAATCCTCACGCATGGGGCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1211:7345:7467/2
+TTGTTATGGTATGTAACCCTCAACTCCTTTATCCGCCTTTCGCCTTCCCATCGAAAGGAACGGTTGCAGCTGTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1212:8043:8168/2
+AAGACGGTCCTCACGAGAGTGGCCTAGGTTGATGATTTGCGTCGGCGTCGCTATGGTGAGCTCAGAGAGCATGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1213:2801:2925/2
+TGGGATTTATGATCACCGCGGCCGCCTTGTGTAGCTCGTTCTGAGATAATCAAACACGTCAAAGACCAGGAGCCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1214:5751:5875/2
+CTCGCTCGGTTCACCCCACTGGCGTAGGAGTTCGAGTTGGCTTCGATCGCAAATGTTGGATCTTCTTCTACATCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1215:1346:1470/2
+CTCATTGGGTTTGCCGGGGACCTTACGCGTGGAGCCCCAACGTGTGCAGAAGGCTCTTGAGCGGCGACCTGTCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1216:5674:5799/2
+CGTGAGACAGTTTATTAATGACGGCTAATTAGCTTGCTAGCTTGTTTAAGAGTTCGGGCAGCAGCTACCTGTGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1217:6879:7002/2
+AGCCCCTAAGTTCCGGGGAAAGAAACTCCTTAATGCTGTTGCAATCCTCCTAATAGGCACGATGGGGGGTCCTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1218:1864:1988/2
+TTACATGCCGCGCGATCCGGGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGAGATGATATATACCATGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1219:2475:2597/2
+GGTATCGGAAGCCTGACATTGGGCTAATGTACAAATGGATGAGTGCGAGAGCTGTGGAACGCTCGTACACGGTCTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1220:6867:6989/2
+CGGGGAAAGAAACTCCTTAATGCTGTTGCAATCCTCCTAATAGGCACGATGGGGGGTCCTAGTTCTTCGTATTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1221:7711:7835/2
+CAATTCCAGCTTGAAGTGTAGTATTCGGAAGGTCCTAACCGGTGCATCAGAACACCTTAGGGGTTCATCACGTTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1222:5498:5620/2
+CACGATAATGTTGTTGTTACGAGGCCTGGCATCACAATGTGGTTCGCGCGCGCCTCGACCCCTTTGCCGCGAGCCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1223:4646:4770/2
+ATACGACCGGCAGACTCGGTAATTTTCAGAAGTAAATCAGTCTATCGGATGTCACGTCTCTTGCTTTGTGTAACGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1224:7553:7677/2
+CCGGTATAAAACCCGTTCATGCCCTTATCTGCGCGTGGGAGCAGAAGTTAAATCCGTGTGACTTTTCATCTGGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1225:3331:3456/2
+GCTGTCTTTACCTAAGCCTCAAATGGTACCTCACCCTGATGCAGGACGGAAGTCGACACCTAAAGATGGCTTGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1226:2060:2183/2
+GGTAGCACTGAAAAGACTCCGTACCCCGCAATGATGCGACGGGCTACTAGGTCTTTTACTCACTTAGGCGGCCGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1227:3150:3277/2
+TCGACCTTACCCATTGTCGCGGGAACATCTGGTGCATCCCAGGGGACGGGTGGGTAACAGAGGAAGCAACACCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1228:322:446/2
+CAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAACCTCCCGGAATGTAATCTAGCCCCAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1229:4903:5026/2
+GGAATGATTTCTGGGTAGAACCTATACGCTTCGTCAGCGGAATACGTCAGTCTTCGGTTTACTTCAGAAGACCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1230:8163:8286/2
+ATGACGTATAGTAATTCGCGCCTTCCCGAGGGAGCGATCCGTGCCGGCGTGTAGAGCGACACGGCTACCTCGGCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1231:1220:1343/2
+TCTTAGTTCGAGACGATGAAACCGTATTCACCGATGCCCGAATCATATATGACTTATCTGTCCACACAAACAACCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1232:1318:1443/2
+CGTGGAGCCCCAACGTGTGCAGAAGGCTCTTGAGCGGCGACCTGTCGGATAATCACGAGTAGAATGCCGCTCGCAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1233:683:809/2
+CAGACAAACAGCTATTCACGGCATCCCGCCTCGTGCCCGAGTGCAGGGGACAATAAACACTGAACCATCGTCGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1234:2600:2723/2
+ATTAAAGCCAAAACCAGGGCTCCGATCGGTAGAAGGTCCATTCATCACAGTAGCGGTGACAGTGCATCGTGTGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1235:7499:7622/2
+GTGTGACTTTTCATCTGGCAACTTTCTGCGACGAAATCCAAACCTTCCTCCCAAGCCCCTTCGCATGTCGCGGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1236:9746:9869/2
+CTTGGCTCTCTTGAGCGCCCGGTTACATAGTGATAAGCGCTCCATGGGCGGACAGGCCAACCGGAGCGTCATACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1237:7904:8027/2
+GAACACTCATATATCGCTTTCATTATGACACATGGATTTAGAACACCATGAGTTTTTTATAATTGCGGTGTTTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1238:4298:4422/2
+CCGAGATTCTCGCGGGCTAAGCTAAAAACCGCAACAGCTTCGATGCTATCTCCTTAATTCTCGCGCTTCCATCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1239:7634:7758.dup.2/2
+GTGCGCCTTGCGGATGGATGTGCTATTACACCGGCTCTACATCGGTCGCGCCCCGATTTCCGAAGAATCTAATGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1240:7129:7254/2
+CGGACGATGGGCGACGTTTGACTAGATGTTTATGCTAGGATTTGTGCTCGTAAGCCTATGTTTTAGTCCATCATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1241:5803:5927/2
+TAGCCCCAAAGGACCCCAGATCAGTTGGCGGAAAGGAACAAGCAAACCGACTCTCGCTCGGTTCACCCCACTGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1242:4058:4182/2
+AAATCCTCACGCATGGGGCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTTCCAGCCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1243:8796:8919/2
+AAAGAAGACTTTTGTCAAAAATTCTGCAGTCGGCCACTCATGGTCTAGGCTGTATACTCGAGTGGTGCATTAACTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1244:8133:8255/2
+GAGCGATCCGTGCCGGCGTGTAGAGCGACACGGCTACCTCGGCGTGCTGGGTTACATCCAGCACCCCGTCAAAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1245:8141:8265/2
+CTTCCCGAGGGAGCGATCCGTGCCGGCGTGTAGAGCGACACGGCTACCTCGGCGTGCTGGGTTACATCCAGCACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1246:1155:1279/2
+CACAAACAACCTCTTTATATAGAGGCCTTATTCCGGGGGCGGTATTCCCATTGTGCCATAAATCCCATAGCGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1247:649:772/2
+CGAGTGCAGGGGACAATAAACACTGAACCATCGTCGAACTGCTCGGCGCTGCCGGTTGAGCATTGAAGAGTCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1248:9205:9328/2
+GTATAGGTAGCCTATCGGATGGGGGGGCTAAGCGTTGGCACAGTTACGCCGAAGTTATATATGGTACCGTGCTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1249:4252:4375/2
+ATCTCCTTAATTCTCGCGCTTCCATCCATGCCCTTATTGTTAGTAGAAACCTTAAGATACACACATAAGTATGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1250:5619:5743/2
+GGCAGCAGCTACCTGTGAGCCAAGACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCATGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1251:942:1067/2
+GTCTTATCCATAGAGTAACGTGGTCTCTTCATTGGCTCGTGAGCTTCCATCGACGTCCGACCGGTGGTTTGGTCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1252:7058:7181/2
+TCAATTTAGCTACATAGGATTGTGACGAGACCCGCTTTCTTTCCAACGAATGAGCTTCTTGTAGTACTTACGGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1253:1106:1229/2
+TTGTGCCATAAATCCCATAGCGGTCTGCGTGTAGATTTTGCTTAAAGGGTCTTGCTACCGCACTCTCCTTTCCGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1254:6736:6861/2
+TAGATCGGGAACTCAGAAGGATTAGGGTGGGCAGAGCTGCTGCTGAGATGGTTTACCGATATAATTGACGGGCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1255:1863:1986/2
+ACATGCCGCGCGATCCGGGGTCTTGGAAAGTTACCCAGGCACGACGAGAACCCGAGATGATATATACCATGCGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1256:7372:7494/2
+TGAAACCCTATGTCCTTTGTGACTCCGTTGTTATGGTATGTAACCCTCAACTCCTTTATCCGCCTTTCGCCTTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1257:5948:6071/2
+TCGCTGCCCCCAATAGTCTCAACCAGTCTCCGGTACGAAGAGCCTATTTGCCGCAAAGATCATGCGGCCATAGATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1258:4523:4647/2
+AAATGTAGTGCTGCTGTATGTGTAAAGACTCGGGGCCGCGATATAGAAAGAGCCCTAACACGGGGTAGGATAAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1259:6214:6338/2
+CTCATTTCGGTGGTCCTACTCAAACATCGCGCGCCGAGCAAACGATAGTGTTCTATCGCTGTGCTGTACTTTCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1260:6116:6240/2
+AATTGTAAATACGAGATAGTTGATACCGTTTCTTCTAGGTTCGCCGGTCATTCCGGGGTCGAAACTGCCCGATGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1261:117:240/2
+GGAGCCTTGGACAGAACGGAACTTCTATCTTCTTGTATCACTGTAAAGTTTGGTGAGTCGGAAAAGGCCGGAAGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1262:7600:7722/2
+CTACATCGGTCGCGCCCCGATTTCCGAAGAATCTAATGGGATGAACCGGTATAAAACCCGTTCATGCCCTTATCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1263:2102:2226/2
+AGGCCGTTCTCATTGTTACCTGGCATTATGCAGAAGATAGCGGGGTAGCACTGAAAAGACTCCGTACCCCGCAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1264:8111:8238/2
+GTGTAGAGCGACACGGCTACCTCGGCGTGCTGGGTTACATCCAGCACCCCGTCAAAAATATCGCTCAGGGAAGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1265:8220:8344/2
+AATGACGGCCCGACACAGCCCCCACTAGTCACACTACGACTCTATAGGAACTCGAGGCATGACGTATAGTAATTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1266:9287:9412/2
+ACACTATGAACGGAATTAAGCGGCCCGTGTGCGAGTTTCAGTCAAGGAATCGGGTCTGTTCAGCATAACTTGAGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1267:4049:4173/2
+CGCATGGGGCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1268:6347:6470/2
+GTCCTAACAGATTGTTGCCCGGGGCGCCCTTTATATACTAATCACCCCGACAGTTGTAGTGGCCCGGGCGCGTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1269:5357:5480/2
+TCAGCAGCCACTCTAGGCAGACTTATCGACCCTCATCTAACTTCCGCTGTTCAAATGTTATAGCTTTAAGAGTCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1270:4124:4248/2
+GAGGAGATAGTTCAAACACTTACTCTTAGCGTGCTATCGTTACCACAGACTGCTAATTGCCGCCGAAAATCCTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1271:2056:2180/2
+AGCACTGAAAAGACTCCGTACCCCGCAATGATGCGACGGGCTACTAGGTCTTTTACTCACTTAGGCGGCCGCGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1272:9402:9528/2
+CCGTCGTATAACTTCGACCAAGCTTCTCTACGTCCCGCTTGATAAAGTGCTTGTTGGGTTCTACAAATTCAATGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1273:350:472/2
+TCGGCACTCGCGATAATTACTTCGCTCAACCTAATTTGTGCCGCGGCCTCTTACGCCAAGGATGCCCTTGTCGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1274:7872:7996/2
+ATGGATTTAGAACACCATGAGTTTTTTATAATTGCGGTGTTTGAGGTAGGTGTCTCATTCCTAACCTTCTGAATCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1275:9293:9417/2
+ATCTCACACTATGAACGGAATTAAGCGGCCCGTGTGCGAGTTTCAGTCAAGGAATCGGGTCTGTTCAGCATAACTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1276:4132:4256/2
+CTAATTTTGAGGAGATAGTTCAAACACTTACTCTTAGCGTGCTATCGTTACCACAGACTGCTAATTGCCGCCGAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1277:9253:9375/2
+TCAGTCAAGGAATCGGGTCTGTTCAGCATAACTTGAGATCCTCATAAGTATAGGTAGCCTATCGGATGGGGGGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1278:5596:5719/2
+ACCGACTGCCTTTTAACCCCCTGCCCCTCTGGACACCAGGAAAAGCATGAGACAATAGGATTCTCGCTTTGACTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1279:9017:9140/2
+TATTCTCCTATACGGAAGTGTAGTCATGAGCGCAGCGGAACCTCGCGGCCCCTCAGCGTAGGTGCCATATAGTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1280:9707:9830/2
+CTCCATGGGCGGACAGGCCAACCGGAGCGTCATACTCATACTTGCGGCAGACACAGAAGTGAGTGCGATGCAGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1281:9507:9631/2
+AGTCTCAGGTTCCTCTGCTTGACATGCGCTATTACTGTACTCAGATGGTGCGGTCCACGGCAGATCCATGCCAGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1282:6645:6770/2
+GTTCGCATTACTCTCGGTTCGCACTCAGAGTTGAGACACAAGCGTACCTTATGGCCGCCTCCAACATGCCGGCTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1283:25:150/2
+GTTTTATTCCAGCGGTGTTACCGAACAGCCATATCACTCCACGGGCGTGCTAATTACGCCAGTCGTTCAACGTGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1284:9766:9889/2
+GATCTACGTCACTGTGGAAGCTTGGCTCTCTTGAGCGCCCGGTTACATAGTGATAAGCGCTCCATGGGCGGACAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1285:4057:4182/2
+AAATCCTCACGCATGGGGCGACAAATCGTGAATTACCTGGCGTATATCGGTCGCCTAAAGGCGTCTTCCAGCCTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1286:625:749/2
+TGAACCATCGTCGAACTGCTCGGCGCTGCCGGTTGAGCATTGAAGAGTCATGCACGTCCAATGTGTATTGTTACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1287:9449:9573/2
+GGCAGATCCATGCCAGGGCTATTGCTGTTATCTCACCCACACAAGCCGTCGTATAACTTCGACCAAGCTTCTCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1288:3115:3238/2
+CAGGGGACGGGTGGGTAACAGAGGAAGCAACACCCGAGTGATTTAACGACACATGTGTGCTGACGGATGGGTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1289:6087:6210/2
+TCTTCTAGGTTCGCCGGTCATTCCGGGGTCGAAACTGCCCGATGAGGTCCCGCATCTCTCACTGCCGCAACACTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1290:7847:7971/2
+TTATAATTGCGGTGTTTGAGGTAGGTGTCTCATTCCTAACCTTCTGAATCTCGGAGTAGTCATCTGTTCCACAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1291:2028:2151/2
+GATGCGACGGGCTACTAGGTCTTTTACTCACTTAGGCGGCCGCGCTGCTTTGGGTGGCAAAGGCACGTGTCCATGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1292:8988:9112/2
+AGCGCAGCGGAACCTCGCGGCCCCTCAGCGTAGGTGCCATATAGTGAACTCTGCGGAACTCGATAGCGTATGCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1293:9:132/2
+TACCGAACAGCCATATCACTCCACGGGCGTGCTAATTACGCCAGTCGTTCAACGTGGGGGGCGTGTCCCCTTCCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1294:8646:8767/2
+GAGTATCCGCTCCGTCTTCCCGTCATGGATTAACATTCCACCGCTGGGGGCGTTGGTTCAAATATCCAGTGCGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1295:4282:4407/2
+GCTAAGCTAAAAACCGCAACAGCTTCGATGCTATCTCCTTAATTCTCGCGCTTCCATCCATGCCCTTATTGTTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1296:9208:9332/2
+ATAAGTATAGGTAGCCTATCGGATGGGGGGGCTAAGCGTTGGCACAGTTACGCCGAAGTTATATATGGTACCGTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1297:1624:1748/2
+GGTAATAACATTGGTATAAATGGTGCTTGCAAGTGTACCACCTTGCAATTTAAACCTACGGCGGCTGTGTGCCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1298:5553:5678/2
+AAAGCATGAGACAATAGGATTCTCGCTTTGACTTTGCGCATGGAAAGGAATTAACTGGCACGATAATGTTGTTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1299:7546:7669/2
+AAACCCGTTCATGCCCTTATCTGCGCGTGGGAGCAGAAGTTAAATCCGTGTGACTTTTCATCTGGCAACTTTCTGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1300:5874:5999/2
+GATTGCAACCTCTTGGCGACACCTTATAATAGAACTCACGCATTGGGTCCTGGGGCTACCTGGACCGGCCAATAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1301:7479:7603/2
+AACTTTCTGCGACGAAATCCAAACCTTCCTCCCAAGCCCCTTCGCATGTCGCGGACGGCGGGAACGCCGGTCTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1302:5824:5947/2
+GGGCTACCTGGACCGGCCAATAGCCCCAAAGGACCCCAGATCAGTTGGCGGAAAGGAACAAGCAAACCGACTCTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1303:3605:3730/2
+GCGTATTCCGCCGCCTTCACCCACTGGTGATAGCAGGGGTAATGCTTGAGCGTAAGGGATCTTAGCAATAATTAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1304:2404:2526/2
+GTCTAAGCACTTCAGCCAGACCCACATGCGCTCGGCTGCTTGCTATTATGGTAAGAGCATTTGGGGATGGCGCAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1305:9495:9619/2
+CTCTGCTTGACATGCGCTATTACTGTACTCAGATGGTGCGGTCCACGGCAGATCCATGCCAGGGCTATTGCTGTTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1306:8819:8943/2
+AACGCCGGGCTGCCAATCTCTGGTAAAGAAGACTTTTGTCAAAAATTCTGCAGTCGGCCACTCATGGTCTAGGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1307:2726:2849/2
+CAATTCAACCGAGATCGAAAGCACTATATTACGACCGGGAGTGCAAAAAACAAAGATATGATGGCTCGTCCGAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1308:2490:2615/2
+GGCTCAACACGGAACAAAGGTATCGGAAGCCTGACATTGGGCTAATGTACAAATGGATGAGTGCGAGAGCTGTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1309:5164:5287/2
+GACATGTCGTTTGAAGGAGGGGTTCGTGACTTGCTATCACGCGTACATAGAGACTGTGTTTCCGCGGCCGGTCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1310:4407:4531/2
+CCGGGGCTGGTGCGGCCGTGACGCAGTTAATATGCCACCTAAACATACGATAGGTCGCCGCATCCTGGAGATTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1311:3152:3276/2
+CGACCTTACCCATTGTCGCGGGAACATCTGGTGCATCCCAGGGGACGGGTGGGTAACAGAGGAAGCAACACCCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1312:3662:3787/2
+CACGTATCTCTACAAATTTCGGAGCGTAATAATCCTGACCGTGACGTTACAAACTTGGCGTATTCCGCCGCCTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1313:4010:4133/2
+GTCGCCTAAAGGCGTCTTCCAGCCTCTTACTTAGCTTTGCTGCATATAAATAAGGAACCGCTCACAGTCTTCAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref2:1314:3163:3288/2
+TGCAGAACTTCTCGACCTTACCCATTGTCGCGGGAACATCTGGTGCATCCCAGGGGACGGGTGGGTAACAGAGGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1315:401:523/2
+CCCCACGGCGCTAATTCGTCAGTCTGTTATGTTTTTTTTTTTCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1316:738:861/2
+GACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTTTTCTTAATGTTTCTGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1317:565:688/2
+GATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTCTTAGAACCCCTAATGCCTCCAAGCCAATCTCTCCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1318:584:707/2
+TAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTCTTAGAACCCCTAATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1319:1808:1931/2
+ATACCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1320:120:244/2
+CCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1321:1104:1227/2
+GCACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGCGTCACTGCCCAACCGAGGTTCATGAAACCCGGAGACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1322:1466:1589/2
+ACGTGGTATACCAGGATATCGCGCCCGCGTGCATTGCCGGACCCGCCAAATTCCCTTTTGTCAGTTCGCGGACGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1323:1043:1168/2
+ATGAAACCCGGAGACCGAGCCTGAATGTGATGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1324:914:1037/2
+CGATGGGTAAGAAATGTCATGGACTGTTCCTCATAGGCTCGGACGATGATACGTGCCTTAGCCCTGTGGGCGGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1325:26:148/2
+AATGATTGGTCGGGCATCAACCCGTTCTACCAGACCGTACGTGAAGCACATTTCCTTCCACGTTGAGCTATGTCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1326:196:316/2
+GGGGCTAGATTCAGGCACTATTACATTTTAAGACTGTTCGCGTGCACTCGTATATCTATAACTTAACGTGATCCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1327:2132:2255/2
+GTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1328:1518:1641/2
+TTAATGCTTAACGCCCCACGCACAAGGGAAGTTACTCTAACGGATAAACGATACGTGGTATACCAGGATATCGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1329:1919:2042/2
+GTAGTAAGGCACGGAAGAGCAAGGCTTATGAATTCCGTCTGTATTCGCCTCTCACTGGCTATACCACTATCGAAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1330:97:220/2
+TGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1331:148:273/2
+GCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1332:64:187/2
+CGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGCATCAACCCGTTCTACCAGACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1333:14:138/2
+CGGGCATCAACCCGTTCTACCAGACCGTACGTGAAGCACATTTCCTTCCACGTTGAGCTATGTCACTACAGGCAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1334:1871:1993/2
+TCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1335:1068:1192/2
+CGCGTCACTGCCCAACCGAGGTTCATGAAACCCGGAGACCGAGCCTGAATGTGATGCGGCTACCTCACGTGATGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1336:1145:1269/2
+GGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1337:1130:1254/2
+CTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGCGTCACTGCCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1338:486:610/2
+AGTGTGGAACATAGGAGTCAGATAATGACATCGAGGTACTAGCTGCGTGATGTCTGCCCCCCGTAAGGGTGCGATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1339:1152:1275/2
+TCCTCTGGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1340:756:880/2
+ATATTTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1341:781:904/2
+TCCCTCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1342:1633:1756/2
+GGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1343:1818:1943/2
+ATCCACCAAAAAATACCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1344:1647:1773/2
+GGAGTTAGTCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTATGGAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1345:185:308/2
+ATTCAGGCACTATTACATTTTAAGACTGTTCGCGTGCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1346:2015:2139/2
+TCAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1347:296:420/2
+CGGTTAGCAGCATTAATTCTGATTGGAAGTCGTCTAGAGACAGTGTCAGACTGAATGGCGCCTCAGTCTTAGCTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1348:2191:2314/2
+AGCATCCACCAATTCAAGTGCGCCTAATAGAGCTACTGCCAGGGCGAGACAATACAACGGTACTTCCGCCCGATGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1349:1415:1539/2
+TTCCCTTTTGTCAGTTCGCGGACGTTGTGCAGGCCCGAGAGCAAAAACGTCTTGAGATCTAGAGTGAAAACGTTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1350:1291:1415/2
+GAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGAACGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1351:1195:1319/2
+CGATCGGGCATGATGGACAACCACCTGTACTCTTGGTTAGTTGATCCTCTGGACCGTGCGCTGGCCTAGTCCACCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1352:1189:1313/2
+GGCATGATGGACAACCACCTGTACTCTTGGTTAGTTGATCCTCTGGACCGTGCGCTGGCCTAGTCCACCAACCTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1353:970:1094/2
+CAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1354:1358:1482/2
+TCTAGAGTGAAAACGTTCTACGTGTTACTCCTAGCTCGAGAACGGGACGGTGGTCGCTAGTCTCGGGGAGCGACCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1355:892:1015/2
+ACTGTTCCTCATAGGCTCGGACGATGATACGTGCCTTAGCCCTGTGGGCGGTGAATTATTCCAAAGAACCGGCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1356:431:555/2
+GCCCCCCGTAAGGGTGCGATAGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGTTATGTTTTTTTTTTTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1357:183:307/2
+TTCAGGCACTATTACATTTTAAGACTGTTCGCGTGCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1358:1805:1928/2
+CCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAACAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1359:1478:1601/2
+CGGATAAACGATACGTGGTATACCAGGATATCGCGCCCGCGTGCATTGCCGGACCCGCCAAATTCCCTTTTGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1360:839:961/2
+ATTATTCCAAAGAACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1361:1328:1453/2
+CCTAGCTCGAGAACGGGACGGTGGTCGCTAGTCTCGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1362:1936:2060/2
+GAATGCCTTCCGCGAGCGGTAGTAAGGCACGGAAGAGCAAGGCTTATGAATTCCGTCTGTATTCGCCTCTCACTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1363:145:269/2
+TCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1364:1164:1287/2
+TTGGTTAGTTGATCCTCTGGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1365:583:706/2
+AATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTCTTAGAACCCCTAATGCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1366:386:510/2
+ATTCGTCAGTCTGTTATGTTTTTTTTTTTCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1367:755:877/2
+TTTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1368:110:233/2
+GGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1369:1997:2120/2
+CGGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1370:1995:2116/2
+AGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1371:834:957/2
+TTCCAAAGAACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1372:1007:1131/2
+ACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1373:1882:2004/2
+CTGTATTCGCCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1374:1149:1271/2
+CTGGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1375:1037:1161/2
+CCGGAGACCGAGCCTGAATGTGATGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1376:1386:1508/2
+GGCCCGAGAGCAAAAACGTCTTGAGATCTAGAGTGAAAACGTTCTACGTGTTACTCCTAGCTCGAGAACGGGACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1377:411:535/2
+AGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGTTATGTTTTTTTTTTTCAGCTGGCCGGGCATTCATAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1378:657:780/2
+TTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTCATTCACATGCAGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1379:580:702/2
+TGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTCTTAGAACCCCTAATGCCTCCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1380:897:1021/2
+TCATGGACTGTTCCTCATAGGCTCGGACGATGATACGTGCCTTAGCCCTGTGGGCGGTGAATTATTCCAAAGAACC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1381:144:270/2
+CTCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1382:27:150/2
+TCAATGATTGGTCGGGCATCAACCCGTTCTACCAGACCGTACGTGAAGCACATTTCCTTCCACGTTGAGCTATGTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1383:1775:1899/2
+CGCGCGCGCTAGAAAATGCGAACTAGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1384:132:256/2
+ACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1385:1220:1344/2
+AACGACCCTAAGTGTGTACGCAACCCGATCGGGCATGATGGACAACCACCTGTACTCTTGGTTAGTTGATCCTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1386:829:952/2
+AAGAACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1387:989:1113/2
+GACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1388:1670:1793/2
+AGACAAGGTCGTGGGCTAACGGAGTTAGTCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1389:557:680/2
+CAGTCGTAGACTTGATATGTAGCATCGCAGGTCTTAGAACCCCTAATGCCTCCAAGCCAATCTCTCCCTGAGTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1390:842:966/2
+GGTGAATTATTCCAAAGAACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1391:2114:2237/2
+GTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATATCTCCGAGCATGACGAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1392:1873:1994/2
+CTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1393:880:1005/2
+ATAGGCTCGGACGATGATACGTGCCTTAGCCCTGTGGGCGGTGAATTATTCCAAAGAACCGGCCGTAACCACCGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1394:74:198/2
+AAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCAATGATTGGTCGGGCATCAACCCGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1395:664:788/2
+GCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATGTCTCATTCACA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1396:721:846/2
+GGCTCCTCCCCCTCCCGATTTGGATCAGATCACCCAGGATATTTTTCTTAATGTTTCTGCCAAGTGTTTCGCCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1397:1958:2081/2
+CACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGGAAGAGCAAGGCTTATGAATTCCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1398:2136:2259/2
+AACGGTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1399:826:948/2
+ACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATATTTCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1400:262:386/2
+TAGAGACAGTGTCAGACTGAATGGCGCCTCAGTCTTAGCTGAGAGTTAACGTCCGACTATCCACTTGCATGGGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1401:292:416/2
+TAGCAGCATTAATTCTGATTGGAAGTCGTCTAGAGACAGTGTCAGACTGAATGGCGCCTCAGTCTTAGCTGAGAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1402:1199:1321/2
+CCCGATCGGGCATGATGGACAACCACCTGTACTCTTGGTTAGTTGATCCTCTGGACCGTGCGCTGGCCTAGTCCAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1403:330:455/2
+TTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGATTGGAAGTCGTCTAGAGAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1404:1872:1996/2
+GCCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1405:415:539/2
+CGATAGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGTTATGTTTTTTTTTTTCAGCTGGCCGGGCATTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1406:680:801/2
+TCTTAATGTTTCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1407:1658:1779/2
+GCTAACGGAGTTAGTCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTGTCGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1408:33:157/2
+CCGGAAATCAATGATTGGTCGGGCATCAACCCGTTCTACCAGACCGTACGTGAAGCACATTTCCTTCCACGTTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1409:1922:2045/2
+GCGGTAGTAAGGCACGGAAGAGCAAGGCTTATGAATTCCGTCTGTATTCGCCTCTCACTGGCTATACCACTATCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1410:2152:2276/2
+CCAGGGCGAGACAATACAACGGTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1411:1947:2070/2
+TATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGGAAGAGCAAGGCTTATGAATTCCGTCTGTATTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1412:675:799/2
+TTAATGTTTCTGCCAAGTGTTTCGCCGAAATCCGTCCTTACACATCTCCAATGCTAGGAGAACGCAAGAGAGAATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1413:1982:2104/2
+TAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1414:2054:2176/2
+CCGAGCATGACGAACATAGCTTGGAGGGTTCAATGTATCAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1415:1076:1199/2
+TGAACTTCGCGTCACTGCCCAACCGAGGTTCATGAAACCCGGAGACCGAGCCTGAATGTGATGCGGCTACCTCACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1416:832:953/2
+AAAGAACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1417:1717:1840/2
+TCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAGGTCGTGGGCTAACGGAGTTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1418:1750:1875/2
+AGCGCACTGGAGCCACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1419:1962:2086/2
+TCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGGAAGAGCAAGGCTTATGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1420:384:507/2
+CGTCAGTCTGTTATGTTTTTTTTTTTCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1421:801:925/2
+ATCTGGTGCAAGCGATCTCAGTCCCTCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1422:1296:1419/2
+CGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCTAATCTAAGTGCCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1423:1310:1433/2
+GTGGTCGCTAGTCTCGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1424:1312:1436/2
+ACGGTGGTCGCTAGTCTCGGGGAGCGACCCGTGGTTAATGACTTCCGGAGTATATACTGGTGGCTAAAATGTCCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1425:485:608/2
+TGTGGAACATAGGAGTCAGATAATGACATCGAGGTACTAGCTGCGTGATGTCTGCCCCCCGTAAGGGTGCGATAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1426:1150:1272/2
+TCTGGACCGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1427:1142:1265/2
+CGTGCGCTGGCCTAGTCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1428:846:971/2
+TGGGCGGTGAATTATTCCAAAGAACCGGCCGTAACCACCGCATAAAATCTGGTGCAAGCGATCTCAGTCCCTCCGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1429:1013:1139/2
+ATGCGGCTACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1430:1129:1250/2
+TCCACCAACCTAGTACTCCACTTGCACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGCGTCACTGCCCAACCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1431:2014:2138/2
+CAAGGTTGTAGACTGTGTCGGAAGACCCCGCGATTAAGAAGAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1432:1545:1668/2
+TCAGGCTGGTGAGAATACTTCTCTACTTTAATGCTTAACGCCCCACGCACAAGGGAAGTTACTCTAACGGATAAAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1433:776:900/2
+TCCGTAGGGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1434:617:741/2
+AGAACGCAAGAGAGAATGTCTCATTCACATGCAGTAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1435:1861:1986/2
+GGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTATCCTGCGCAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1436:1863:1988/2
+CTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTATCCTGCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1437:1717:1840.dup.2/2
+TCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAGGTCGTGGGCTAACGGAGTTAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1438:1389:1512/2
+TGCAGGCCCGAGAGCAAAAACGTCTTGAGATCTAGAGTGAAAACGTTCTACGTGTTACTCCTAGCTCGAGAACGGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1439:1736:1861/2
+ACCGAACAGTCACCACAAGTATCATACTAATAATCAATGCGTAACAGGTAGTAAAGGAAAGTTATAAAAGACAAGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1440:320:443/2
+TCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGATTGGAAGTCGTCTAGAGACAGTGTCAGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1441:448:572/2
+CTAGCTGCGTGATGTCTGCCCCCCGTAAGGGTGCGATAGTTTCTTTTCTCCCCACGGCGCTAATTCGTCAGTCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1442:190:312/2
+CTAGATTCAGGCACTATTACATTTTAAGACTGTTCGCGTGCACTCGTATATCTATAACTTAACGTGATCCATTGCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1443:531:655/2
+CGCAGGTCTTAGAACCCCTAATGCCTCCAAGCCAATCTCTCCCTGAGTGTGGAACATAGGAGTCAGATAATGACAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1444:328:450/2
+GGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTGATTGGAAGTCGTCTAGAGACAGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1445:957:1080/2
+GATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTGTTCCTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1446:1409:1533/2
+TTTGTCAGTTCGCGGACGTTGTGCAGGCCCGAGAGCAAAAACGTCTTGAGATCTAGAGTGAAAACGTTCTACGTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1447:263:386/2
+TAGAGACAGTGTCAGACTGAATGGCGCCTCAGTCTTAGCTGAGAGTTAACGTCCGACTATCCACTTGCATGGGGCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1448:963:1087/2
+CCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCATGGACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1449:374:498/2
+GTTATGTTTTTTTTTTTCAGCTGGCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1450:1009:1131/2
+ACCTCACGTGATGGAGGGGACGAAGTAACGCTTACGACAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1451:971:1094/2
+CAGCCTTCCATTTAGATCGACACCTGTTGGATGTACAGTGTGTGGGGTTGCGCTGTGCGATGGGTAAGAAATGTCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1452:1243:1367/2
+TGTCCTGTCTAATCTAAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGATCGGGCATGATGGACAACCACCTGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1453:870:994/2
+CGATGATACGTGCCTTAGCCCTGTGGGCGGTGAATTATTCCAAAGAACCGGCCGTAACCACCGCATAAAATCTGGT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1454:1975:2098/2
+GAGGCCTCGCTGTCGCCCACCACGACCTTATGTTCCTCGAATGCCTTCCGCGAGCGGTAGTAAGGCACGGAAGAGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1455:2135:2257/2
+CGGTACTTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1456:351:475/2
+GCCGGGCATTCATAACAGAGTTTTGGGACTTGTCCTATCCGTAACGTTCGGTGAACGGTTAGCAGCATTAATTCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1457:911:1035/2
+ATGGGTAAGAAATGTCATGGACTGTTCCTCATAGGCTCGGACGATGATACGTGCCTTAGCCCTGTGGGCGGTGAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1458:1226:1352/2
+AAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGATCGGGCATGATGGACAACCACCTGTACTCTTGGTTAGTTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1459:597:721/2
+TCATTCACATGCAGTAATCTGGGGCCAAAAAACGATGCGAGCAGTCGTAGACTTGATATGTAGCATCGCAGGTCTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1460:1607:1729/2
+AATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTGGAACTAGCCGGTTCAGGCTGGTGAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1461:770:893/2
+GGTGGTGATACGCATATTTCGAACGACACAGAGACAGGATCTACACCGGCTCCTCCCCCTCCCGATTTGGATCAGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1462:514:635/2
+ATGCCTCCAAGCCAATCTCTCCCTGAGTGTGGAACATAGGAGTCAGATAATGACATCGAGGTACTAGCTGCGTGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1463:1839:1961/2
+TTTCTCGCAGACAGGCAAATCCACCAAAAAATACCAGATTATCCTGCGCATGGGGTGTTTCACGCGCGCGCTAGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1464:1606:1731/2
+GCAATCCTTGGAGAGAAACTGTGTCGTATGGAAGCAACGTAAAAACCAGTGGAACTAGCCGGTTCAGGCTGGTGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1465:99:223/2
+TGGTGCGAACTGCCTTGGTGTACAGAAAAACGGGTCCGGAATGATCCTTCATGATGGTCCTTGACGCCGGAAATCA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1466:1232:1355/2
+TCTAAGTGCCGAACGACCCTAAGTGTGTACGCAACCCGATCGGGCATGATGGACAACCACCTGTACTCTTGGTTAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1467:2128:2251/2
+TTCCGCCCGATGTCGTGTCTGTATCGCAGTGGGTAAAGGCCTATGCTAAAGTGTGCCGCTCTCAGTGGTATATCTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1468:154:279/2
+TCGCGTGCACTCGTATATCTATAACTTAACGTGATCCATTGCACTTGGACGGCAAGTGGTGCGAACTGCCTTGGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1469:1661:1784/2
+CGTGGGCTAACGGAGTTAGTCTTCTCCGGGGATTCTCGTGCGACATCGCCACTGCAATCCTTGGAGAGAAACTGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1470:1102:1225/2
+ACCTACCCTGGAGAAGGCTCCGTAACTGAACTTCGCGTCACTGCCCAACCGAGGTTCATGAAACCCGGAGACCGAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at ref3:1471:1885:2009/2
+TCCGTCTGTATTCGCCTCTCACTGGCTATACCACTATCGAAGCACTCCTTTCTCGCAGACAGGCAAATCCACCAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.ref.fa b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.ref.fa
new file mode 100644
index 0000000..9180887
--- /dev/null
+++ b/ariba/tests/data/clusters_test_minimap_reads_to_all_ref_seqs.ref.fa
@@ -0,0 +1,545 @@
+>ref1
+TGCATCCTTCCCGACACTCCAGAGCCGCTAGACACATGTATGACCATCCGGTGTGGTCAC
+AATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCG
+TAGTGCCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTT
+CACGTACAGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGG
+ACCATCATGAAGGATCATTCCGGACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACT
+TGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTC
+TTAAAATGTAAAAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCT
+CAGCTAAGACTGAGGGGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAAT
+TAATGCTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTTATG
+AATGCCCGGCCAGCTGAACGCAAAACGCATAACAGACTGACGAATTAGCGCCGTGGGGAG
+AAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCA
+TTATCTGACTCCTATGTTCCACACTCAGTCGGAAGTTGGCTTGGAGGCATTAGGGGTTCT
+AAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGAT
+TACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGA
+CGGATTTCGGCGAAACACTTGGCAGAAACATTAAGGATAATATCCTGGGTGATCTGATCC
+AAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTA
+TCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGAAAGAATGCGGTGGTTACGGCC
+GGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTGTCATCGTCCGAGCCTAT
+GAGGAACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACACACTGTACATC
+CAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACG
+TGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAG
+TGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTG
+GTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCC
+ATCATGCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTAGACAGGA
+CATTTTAGCCACCAGTATATACTCCGGAAGTCATTAACCACGGGTCGCTCCCCGAGACTA
+GCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTCTAGATCT
+CAAGACGTTTTTGCTCTCGGGCCTGCACAACGTCCGCGAACTGACAAAAGGGAATTTGGC
+GGGTCCGGCAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAG
+AGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGAAGTATTCTCACCAGCC
+TGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAG
+GATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGA
+CCTTGTCTTTTATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTT
+GTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAAC
+ACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAG
+TGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCT
+CTTCCGTGCCTTACTACCGCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCG
+ACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCTTGATACATT
+GAACCCTCCAAGCTATGTTCGTCATGCTCGGAGATATACCACTGAGAGCGGCACACTTTA
+GCATAGGCCTTTACCCACTGCGATACAGACACGACATCGGGCGGAAGTACCGTTGTATTG
+TCTCGCCCTGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGGATGCTGAAAAGGGCTC
+GTGCACTAGGTCATATTGGTTCGATGCTAAGCCTGGGATACCGTCACCCCCACATCTCGA
+CGCTTTGATAGTTGTTCACACACCCCGCGACTCGTTCCCGAGAGAGCTTAAAGTGAGTAC
+CCCCCGTGAACCGCAAACAGCCACAGGGAACTTCCTTTGCCCTCGGTGTACTGACCATGA
+CTTCGATAAGGTAGTCTGGTGGGACAAAATAACATAGGGAACGCCTTTAGGCCGCCGCCG
+GATAACAGCACCCTCTATTACTGATTTTCGTTAATTATGTTCAAATTGCTTGCGTGTGTC
+TCATGTTCGAACGGCCTCAGCACAAGACTGGAGCGTTAAAGGTGGTAAGTATAGACAAGC
+CATGCGCTGGATTTACTCGTAAAATGGCGTGATTCTGATAACTATACTTCGCCGACACGG
+GGTACCTACGTGGGATCACGGCCAGAGTCGCACAAGGGTAGTTAAATCCGTATCAACAAT
+GCACTACGTTGCTTTGAGGGATACACATCCAGGCGTTGCGATGTCTTGCGGGCCGAGGCG
+AGAATCTTACGTGCCGTAGCCAAGCATAGGATTGGACGTGAGGGCTACGTCTGATTCTCC
+GTACCAGTGGTGAGTAGACTTGGGGCGACGGCCCGTTCATTAACTCCACAAAAGTTTGTC
+CCCCGTCCGGCCCCGCATCATGGTTCGCCGGTGTCAGCTTGCCGAGCGATATGCTGGCAA
+GTAATTTATACTAGAGTTGCTCCACCGATCCACTTTCCCTAAGTATTGATACGCCCGGCG
+TTCCGGTGTACTAGAGTACGCCACAATGAGTTGGGCATACAACAAACTAAATGAGCCTCT
+GATCACAGGACAGTTGATGCTATAGGTGGTGTCCTTGCCAATCTGGACTCTAATCACGTT
+TGTTCTGAGCAGAAGTCGAATCTGCAACGGTCTCTCGTTCTTCCCGGGTGGTCCACAGAT
+GGCGCTCTAATTACCCATCGGGGTTTATGAAGACACCATGCACAATGCGACGTTTCTGCC
+GATTGGCAATTGCAGTTAAAGACTTCACCCCAAACCCACCCCGAAAGTTATGCGGTATGT
+GCCCGAATAAGCGTAATGGGTCCGCCTTTCTACGCCGCATCTAAAATTCGCGGGCTATCG
+CGCGAATGCGACCGTGAACTCTTCTTTCCGACTCTGCTGTCTTAATGTCCCAGGGACGGA
+TACCGGTTTCACCGCTATGCCCATTGGAACTCGGATCTACGAGGGGGATCCGCCAGGTGG
+TACGCAGTACCGACAATCGATTGCCGGCAGAGGTGCACGTATTTGTTTTGATAAAATCTT
+ATGCACGAGAACTCGGCTTTCCACGAGGTTATATGAGAGTCTATGACAAATCGTACGCTA
+TTTGCATCCGACGGAGGCCGCATTCCAATTGCATTCCTCTTGTTCCCAGACTTCTCAGGG
+TTAGGATAAGACTACGGTGTCTGACCCCGGGTGTAGAATACAGTGTGATAGACCCTGTCT
+TAGGCTTGGTCCACGAGCAGCGTTAGAAAAAAAATATCGGGTGTAATCCCTTGTCTCGTA
+TAGGCTAACGTCTCGGTCTATAGTCAACTTACTGGTTTCATACTACACCTACGTCATACC
+CACGTGCAGAATTACCGCGTGGCTAAACCCCTCTCCACAGTCGCAACCCATCTACATAAA
+ACTAATCACGATCTATGGATACTCGATTGCCCTGCAATCACTAAAAGCGTTTCACCTCTT
+ACGGAACCTATCCGCACAGAAGCCTGTAAACCATAAGGGACCAGCAGCGAATATGCCATC
+CTTGACCTTCACCATCAGCTGATTAAGTCTACGCACTGCCTCGATAGGTTTGATGACTGC
+GCGTTAACTCTCATATATATACACTCCAACGTAAAGCTCGTGTTATCATTGATCCGTCTC
+GCCATAGAAGTTGACGAGTGATAGTAATAATACCGACTACGAATCGAATGAATTGGACGA
+AGAGTGGTATCTTATCTAAATCGGTCTGGCCAAGGCAGGCTCGCCACAGATTCTGGACAG
+CCTTCCATGGGGCACAAAGGTCTTCTATCCGCTACAGCATTTCGCGATCTCGAAAGCTGA
+AACCAAGGATCGTACCTCATCAAACTCGGCTCATTAGCGGGCTATGATTCAAAGCACACA
+AGCTTAGAGGCCGTGCATACTATCTAGCTCGGATCCGTGTGTTCGTAATCTAAACGCCGC
+AGACTTAATCGGCTGCCTAAATTTTTAAATCTCCATGGAATTACCAGTCCAGGAAATCAA
+CACGAGTTTTCACCTGAGACGCGGCATGACGCCAGTGGTCCCCAGAGCAAGCACATTGTT
+GGATTTTCATGCCAAGCCACGGAAGGTAAAGTAAAGGGGGCCTCAGGTGAACGGTTTGTC
+TTCGGTTAAGTTAGGCACGTATTATCGTGTCCTATAGTCATCCGCTGGAGCTAGATCGTC
+TACATGGCCGCAACGCCGTAACGGAGTCCTTTGGTGTACGTATGGCTAAATTCGCTGGGT
+TCGGCGTCAACTCCCAGTGCTGTACCTGGAGGATCCGCGGGAACGTCTTTTTATAGTCCC
+GGATGTCACTCTTTAGGCAGACTAGGCGTCCTGCTAATACTATCAAAGACGAGGACCACA
+ATTGGTACTCGCGCTCCTGAAATAAGGGTCCGCGCTGCTGGGGGTCTAAATCAGGCTTCT
+GGCCGGGATTAGGCTCCTCGTCTATTTGTACCTTTAAGACTACCGCGGGAATAGAAACGG
+ATTCTATGGGCAGGAGGCCCTTCCAACGTCGCGATTCGGCTACGGGGCTCTACTCCGAAT
+TCCGTAGACGGGGATAGCTGTCACCACAGTCGTTAGCCGATTCAGCCTCAGCGCCTAATA
+CCGGCAATCCTGAACGGCCCCCACTTTACGCGGGCATGGTCCCATTATGAGGTAGTGTTT
+AGCGTGGAGACGCGCATAAAAATACTTGAACGTCCTCGTCCCCATCGGGCGGATGTGCTG
+CCCACAAAGTTAATAGTGCAGTCACCTAGTTCCCCGGAATGGTGTCCGTATTATAGTGGC
+AACACCGAATCGGTTGCTAGTTGAGGTCTCCTGCCGTGCAATGCACCTTAAAGTGCATCA
+CGACTTAAGTTCGTTAGCCAAGGGGTACGGTGTCGCCTATGCGGCTTGGTTACCTTTGCG
+CGTAATTGGGTCATCGTATGTGTATGTCTACTCTGACACTGCACTGTTCTTGAGGCGCAA
+GAAACAGCTGGCGGAGGACACGATGAGGGGCCGGGTTTCGTCTGGGTAGAGGCCCCGCCG
+AAAGAATGCGAATTTAAGGGTGCTATATTCAATACCATCTTTCTGACTGACCTGTATTAC
+GAGGCCGTATCGTGTCTAGACTTATAGTGAAGTCATAGACCATTTAAGTGCCAGTGAAAG
+CAATCGCAGCCCGATACTCTGTAAACTAGATCCATCCCGTAGCACCGGCCCCCCAGTTTA
+GGGGGCTAACAACGAACGCCCGGGGCAGTAACACGGTCCAAAACGTACCCTTACAGGGCC
+ATTTCAAATGCGCGTGTCGTGGATGAGTGCTGACCGGACACCTTGACACAGCAATGGACG
+ACTCCCAACTAAGGTCAGAGTTTGTATCTATCCCCTACTAAGGTAATGACGTTTTATGCT
+CAGAATCATGTATAGACTTAATAACGTGAGCCGCGGAGTGACCATGTTGTAAGCTCCTTG
+CTTGGCGGGCTTCAGAGTCACAACTCAACAACTAACGTTGGGAGAAATAAAAGGAGGGGT
+AAGTCCTATCGTTCCGCACGGAGATTGTCTGAGGTGGACTCGTCCGTTGACGAGGAGGTC
+CCCATCACGTTAGGCCATATGACATATTCGGCATTATGAATAGGTATGCAAGTCCCACAG
+TAGGGGAGCAACCTTTGCCAATTTACACGTTAACGCATGCCAATGGCAACATCAACGGCG
+GCCTTCAAAACCCCTGAGTGGTTAGCCGGAGAAACCAAGCACATCATCAATTCGGCCATT
+TAGTTACTATGGAAATCTGCGGTTAGTCAGTCTAACTTGCAGAAAGCTCGTATAGCAAGG
+ACTATAGGTCTCTCGGGCCAATATTCCAAAGATTTATCGATGTTGTCCAATCGACATGGA
+GACAGTGTATCGCCAACGATCGTCGGTAAGTGCGTAGGGGACCGTCATCCGGACACGTAA
+CGTATTGACTACGTTCCTGGTAGGATAATGTATAGGCATACATCAGTCTCGGAGTAACAC
+TAATAATGGAGCTAAGTTGGGAGACCCCGGCCCAGACAGGTTTTCACCAGCAGGGACCGA
+CCCGGCACACTGGCTATCCTTCTACCCTAGCCCCACGGTGGCGCCGCTCAACCCACCGAT
+ATGAGTTGGGACATGCATAAGAATGACTCTGACGTAAATACCTCCGAGTGGACAGTAATA
+CAAATCGCGCTAAACCTCTAACAGGGTCGGCTTGTGGTCCAAAGTATCACCTTAGCCGCT
+AATCGTGATAGAAATCTGTAAAGTCACGCGGCTGCCGTACATACCTTGAATTTATGGGGA
+TAGGGACGGGAGTCCTTGCGGCTTGCGTACGGAATCATGGAGAACAGGTTTTGCGGGTAG
+TGTGGACATTCTTGCATCCGGCGCTACCGTCACTTCCTCCACCGGCATCGGGCACACGTG
+TTGTTCCTAGGAAGGCAGCGACTGATCCTTTAGTGAGAGCAGAACCAACTGAGGCCGAGT
+ACATACGACGCAAGTGGAGGGCGATAACCATGAAGTCGGGTAAACATTCTGGGGCAAGCT
+ACTACTACGGCTGGCCGTGGGCCTATAACGCCACATAGACATAACACATTCGAAGGGCGT
+ATTGCGTCTTGTCTCGGTAGTTACTCCTACTGCTACGCGTCGAAGTCATTAGGGGTTTAC
+GGTCTGAGCTGGCCATGTCACCGAACGCTGCTTGGTAATCTCGGTCCGGTACCGATACGG
+AGGCAACCAGTCATTGGTGGGAACTAGTACGTGAATGGCGCACCGGAAATTATATCCCTG
+GATTCGGTTTTATGTCGTACGCCCGTTCTCAGATATGTATTTACGCAGCGTATCTGGCTC
+GAACATCACTAGTTACATCGAGGGCGCATGAACCGATAGGGACGTGGAGTATAGGAACTT
+CGGGTACGGACGCCGACGTCTGGCGCCGGGAAGTGGGTGTAGACCTGTGTAAATAGCTAT
+ATCGGTTAATTCCCTGGTAAAACACCAGTTCTCCAAGATGAAGGGTTAATGACCGTCAGG
+CGAGATACAGACAATAATGCTAATATTATATTTACGCTAGCCTTAATAGTCATCCGTTGT
+ACCCTCACTCACCGATGATATCCACGGATCTTCGAATCGCGGCAATACTTGTAGGTTGAT
+GTCCTCCCCAAAATACCCTGATTGTCAGCGCTCTGGGGACCTCGTACCATATAAAAGTCT
+CATTGGATCTAGTTAGTGAGTCGCTCGTTGCGGACAATAGGCACTGTCCTACGTCTGACT
+TTGGGAGACAGTGGGGAGGAGGTTTGGAGCCGGTTGGAGAGAGGACGATGGCACATCAGC
+AATGAGCAGATAAGACCACACTGAGTAACCAGGAATGCCGCTGGTCAGGTTCCGAATGCT
+ATAGTGGGAACCCAACTGGCATACTACTTGCGCAACTGGGCCTGGGAGTCTTAATTGCGC
+CACTGGCAACCTCCAGTACGTATTTCCACTGCTAGGGTTTATAGCCGGTAGCCTCTGCGT
+TCTCTTGGCTAACATATTAGGACAACGTTGTGGTGTCATCGTTAATCTGGAGCCCTGATC
+GCGCTTGGTTATTGTTGTGACAAAATTATCAAGCTTTAGTCTACCATTATATTGTTCGGA
+TGCAAGTGAGCAATAGATCCATAGTCGTGTTTAAGCCCACGCCTGAGTCGCTTCCGCGAT
+TGTGACAAGTACGTGACAGCATTTACAAGCCCGTATAGCTGAGGGCCCAGGGACATATAC
+TTCTGATTGTCGCGGATCGCGAAACGATCAGTGACAGAGGCGCGACATCATGCCTGACGC
+AGGGAAATTCGGAGAGCTGTATAAGAGTTCGTAGGTACAGCCATATTAAAGGTAATCTAG
+GTGAGAGTTTGTCAACATCCGCCGATCAAGCATGATGCATCTCTTAATAGGTTGTTGTCC
+AAGACTCTCAGTGAGTATTGCTTTCTAGAGTAACGTCCACTCGCCTAGGGGTCAGGCCTA
+CCTTGGATTGCATTGTATAGTAAGCCATACTAGCTTTCTGCAGAATCTAAAATCGACACC
+CAGACTAGTGAACGTACACGTGTCAACGGATTCCTGGGTGACAGGCAATCCCCATTTGTT
+ATATTTTCTACTGTCAGCTCTGCCCACGCAACCTTACTACCAGAAATCTTCGATGACGCT
+AACTTGTGATCCAACTATCTTACTCCGCTTCCATGAAAGTCACGGGGCAACCCTGTGTAA
+ACTTGCGTAACCTGTCCCTGCGGTACAGTTTCCGAGTTCTTCCTCGTGAGCCGTCACCTC
+TTATAGCTCGGCGAGAAAAGCCGACGGTTAGCTCATACCGACTTTCGATTGATCATGTTT
+TCTCACTGTCCGTTAACGGAGATTAGATCCGTATTATTAAAGCATTCGTTATACAGTGGC
+TACGGATATTAAATATACCGACAGGCCGACTGTAAAGGGGAGCGAAGGACGTCTTGGTCC
+TCGGCTATACAACCTATGTACAGGGTCACTTTATGAGACCGGCAATGACCTCCTATGTCT
+ACTGGGGAACAATAGCTTAGCACCCGTCAGATGCTACCATGCGCCGCGGACCCGTGAGCT
+TATGGGTATGTCTTCCAGGAGCCATAGGTCCAAGCCACGGTTATCTCAGGAACATTACCA
+TAAATATCTAGCGATCACTATGACACGGGTAGACTGCGGAAACCAATGATACTGCAAGTC
+AAGCCGAGCATAAGGAACAAAGTTCAGTCAGGAGTTGTAGTACCGGCCTGTCCTATTTGC
+GAATATCGTTGTTCAAGACCCACGCTACAATCGGAAGCAGCTTTAAGGCGGGCCTCCCTT
+ATAGCATTCGCGGCTTCCGTTACGATGGATAAAACATCCGTGTGTACAGATTCGAAAGAC
+ATCCCGACCGAAAGCAAACACGAGTGATGTGCGGGGGGGCGTGTCCGGCGCCCCATCATG
+TGCGAGAGTAGCCAAGATGCCCAACGCTTAATGTGGGACTTATGAGCGTCATCGGTCGCG
+TATACCCCGTTGTATTGAATATGGGAACCTTGGCATAGCAGATGAGAGTTCGTGTGGATT
+CTCACCAACTCCACGACGATCCTCTGGTAATGCCCCACCCCTACATGATCTGACGGGTTT
+TTACGCTCAAGGGCCCATAGAGGCGCCATTTTGCTCGGATTCGTGGTGTCCTTAACAGGG
+ACCACGCCGCAAAATGCTATTTTTACAGACGGTCTTAATAGTCTCCCCCTTTGTAGGTAA
+GTGGATCAGTCCGCAAGCTGTATCAAGTATCATTTCGTTTTCCCGATTTCACTCCACACA
+CGATTTTTATGCTTCAGACTTAGTTAAACGAGAGAGTCCG
+>ref2
+GTCGCTTAGGGTCGTTCCGTCGAACCTTCTACACTGCTTTGTTCTGGTCCGCCAGTCCAC
+TTATCCCACCGCTAGCCTTCGCTTGTCACTTGGGCATTTGTCGCCCCTTTGGGCGCGGTA
+GGAGGGGCTTTCGGGAAGGGGACACGCCCCCCACGTTGAACGACTGGCGTAATTAGCACG
+CCCGTGGAGTGATATGGCTGTTCGGTAACACCGCTGGAATAAAACCACCCCCAGCGCATT
+CCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAAGTTCCGT
+TCTGTCCAAGGCTCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTA
+TAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGCCATAACGGTCCACT
+AGCAAGTGTTCAACCGACTCTTCCCGTTGGGGCTAGATTACATTCCGGGAGGTTCGACAA
+GGGCATCCTTGGCGTAAGAGGCCGCGGCACAAATTAGGTTGAGCGAAGTAATTATCGCGA
+GTGCCGATTAGAAGCCGATCTTGGGGATGACTGTACTAACGTCTGTCGGATAGTGTTCGC
+TCAACCGCCACTTGGTCGTTTCTACGCCCGTGGTGCTGAGCGCCTCCTAGTCTACGGCTA
+GGATCCTCCTCGAAACTTAGCATTGCAGGCACACTTGATGACACCTACGTATCACGCGTC
+CCGCAAGTGCTACTCAGCTCTTGTGTTCCGGTAACAATACACATTGGACGTGCATGACTC
+TTCAATGCTCAACCGGCAGCGCCGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCT
+GCACTCGGGCACGAGGCGGGATGCCGTGAATAGCTGTTTGTCTGATAGTCAGCCCATTTT
+CTATACGCCGAGTGCATCAGACACTCTGAATCCTGTTTAGTGATACTTGTGCATGAGGCC
+TGATTAAGGATACCTCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGGATGTGA
+CTGTGTCGATGTGATTATCTCCATTCACCAAACGCATCTGGCAAAAGAGACCAAACCACC
+GGTCGGACGTCGATGGAAGCTCACGAGCCAATGAAGAGACCACGTTACTCTATGGATAAG
+ACCTAGTCACGGCAGGTCCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATC
+TACACGGGTACTATGTACGAGAGTTGGTTGCGGAAAGGAGAGTGCGGTAGCAAGACCCTT
+TAAGCAAAATCTACACGCAGACCGCTATGGGATTTATGGCACAATGGGAATACCGCCCCC
+GGAATAAGGCCTCTATATAAAGAGGTTGTTTGTGTGGACAGATAAGTCATATATGATTCG
+GGCATCGGTGAATACGGTTTCATCGTCTCGAACTAAGACAAGGGGTTATGTAAATAAACG
+TTTTGCGAGCGGCATTCTACTCGTGATTATCCGACAGGTCGCCGCTCAAGAGCCTTCTGC
+ACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTACGCTA
+CGCGCCTGTATATGTCATTTGCCGGGCCTCTCCCCGAAAATGCACGTGGGGACACCTGAC
+GGACCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAATTAAGCGTACAA
+CCATCTAGTGCGCAACGTCGCCGCCAGCAGATTGCCCCGTGGATCTGTCGGAAAGGCGAT
+CAACAATACGGGCACACAGCCGCCGTAGGTTTAAATTGCAAGGTGGTACACTTGCAAGCA
+CCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGT
+CGAAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAA
+CGTCAGAGATTTAGTCAACCGCACTCCGCAAGTGGACGATAAGACTTACGTCAGCTACTC
+AATACAGACGCATGGTATATATCATCTCGGGTTCTCGTCGTGCCTGGGTAACTTTCCAAG
+ACCCCGGATCGCGCGGCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGT
+AAGGAGGACGGGCCTGCCGCTGAGGACAATTCATAGCCGGACATTATACCTCATGGACAC
+GTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGT
+CGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCC
+AGGTAACAATGAGAACGGCCTGAGTACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTG
+ATGTTTGCACTTCCGGGACATAGGTGCGTCGGTGGACGATTTATTGAAAGGGAATCGACA
+TCTTTCGCGCTCGACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGT
+GCGTTCATTGTATATTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTA
+CTTAACTTGCGCCATCCCCAAATGCTCTTACCATAATAGCAAGCAGCCGAGCGCATGTGG
+GTCTGGCTGAAGTGCTTAGACCGTGTACGAGCGTTCCACAGCTCTCGCACTCATCCATTT
+GTACATTAGCCCAATGTCAGGCTTCCGATACCTTTGTTCCGTGTTGAGCCTGCCTACTAA
+TGTAACCGGGTGCAGAGACAGCTAACACACGATGCACTGTCACCGCTACTGTGATGAATG
+GACCTTCTACCGATCGGAGCCCTGGTTTTGGCTTTAATATGTGGAGATAATTGCAATAGA
+GCATGTATTTTATCACTCAAATTCACCCGATTCGGACGAGCCATCATATCTTTGTTTTTT
+GCACTCCCGGTCGTAATATAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGTCTTT
+GACGTGTTTGATTATCTCAGAACGAGCTACACAAGGCGGCCGCGGTGATCATAAATCCCA
+AGAGTTATCGTTTGTCCCACGCGAGCTTCCTATGAGTCGTAAATATGTTGCAGTTCGTAG
+TGTTTTGGCTATGCAATGTTCGAATCGTTGTCAGGGACGTAGCATACACACCGGGGCGTC
+CGGGGAGTTTTCCACTTTGTTCAAGGCTGAACGCAAGTGTATGTACTCTTGACTACATTA
+TTGCCAAAGACTATAGTATACGTGCGACCTTAAAGGCACGCTATTGCATGAGTGTTCCTT
+TACCCATCCGTCAGCACACATGTGTCGTTAAATCACTCGGGTGTTGCTTCCTCTGTTACC
+CACCCGTCCCCTGGGATGCACCAGATGTTCCCGCGACAATGGGTAAGGTCGAGAAGTTCT
+GCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGGAGCTGTCTTCACGCACGA
+ATTAGTATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGAC
+TTCCGTCCTGCATCAGGGTGAGGTACCATTTGAGGCTTAGGTAAAGACAGCAAGCACAGT
+CCCGACCCTGGATTCGTGAGGTATAGAGTACCCTGCCAGACGAAGACGGGTAGGCTTTTC
+AGCCACCCGAATTACACCCTGCTAGATCATCTCTTACTGCTAACTCGCTCTCTCATAAAA
+GATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCATT
+GGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCATTACCCCTGCTATCACC
+AGTGGGTGAAGGCGGCGGAATACGCCAAGTTTGTAACGTCACGGTCAGGATTATTACGCT
+CCGAAATTTGTAGAGATACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTA
+GTAGACGCGTAACTTGACACTATCGTTTCAGTCATCCAAATTGGAGGCAACAACATCACT
+ATCGAGATTTCTCGGGCGCCATATAAACGCTACACGTGGGAGACAGCAGCTACTTCAGAG
+CGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATG
+AACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGACTTGAAG
+ACTGTGAGCGGTTCCTTATTTATATGCAGCAAAGCTAAGTAAGAGGCTGGAAGACGCCTT
+TAGGCGACCGATATACGCCAGGTAATTCACGATTTGTCGCCCCATGCGTGAGGATTTTCG
+GCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTC
+CTCAAAATTAGGGGTATAGATAGAAGGCGATTGAACGGCTCTAGCGCACGTCTAACCCAT
+ACTTATGTGTGTATCTTAAGGTTTCTACTAACAATAAGGGCATGGATGGAAGCGCGAGAA
+TTAAGGAGATAGCATCGAAGCTGTTGCGGTTTTTAGCTTAGCCCGCGAGAATCTCGGAGT
+ACCTAATTTGTGTGAACGCACGCGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGT
+ATGTTTAGGTGGCATATTAACTGCGTCACGGCCGCACCAGCCCCGGGCCCTGTCCTAAGT
+CCATGCTTTCGCATGTGTGAAGCGTGCATTTATCCTACCCCGTGTTAGGGCTCTTTCTAT
+ATCGCGGCCCCGAGTCTTTACACATACAGCAGCACTACATTTTTATGCCAATTGCTACTT
+GCGTGGGACGCAGTTGAATAGCCGAATTAGCGTTACACAAAGCAAGAGACGTGACATCCG
+ATAGACTGATTTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGT
+ATCGTAATCTCTCATTCTTCTCGCACATGAGTACCATCATTCGGTTATTTGGGTACATGG
+GCGTATCCCACAAACGTTTTTCTTGTACGGAGATCTTTGCATCACGGACGTCGAATCGAT
+TTTTGTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAG
+TAAACCGAAGACTGACGTATTCCGCTGACGAAGCGTATAGGTTCTACCCAGAAATCATTC
+CACTCCGCTCCCTGCGAGTCAACGCCAGAACTTGTCCAGTGGTCCTTATCTCTTAACGAG
+AGACTCTGGTTGGGTCCTGATGAGGTACCCTCGCACAGATGCCTCTACTGCTGGTTATTA
+TAGGAGCAAGAGGCCAATTCTGGAAGTTTTGCTATTCGAAATCCTACAGGATAGAGGAAC
+AAGCGCATGGACCGGCCGCGGAAACACAGTCTCTATGTACGCGTGATAGCAAGTCACGAA
+CCCCTCCTTCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAGTGCTC
+CAGGGTTGCTGAACGACCACCGTCTAACTGACGTTCGCGTCGTCCGTGACAGATCGAAAT
+CTAGCAGCCGCATATAAGTACGACTCTTAAAGCTATAACATTTGAACAGCGGAAGTTAGA
+TGAGGGTCGATAAGTCTGCCTAGAGTGGCTGCTGAATACGTACGCCGTATATTTACAAAA
+ACCGATAGTGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCG
+AGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGT
+TAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTATTGTCTCATGCTTTTCCTGGT
+GTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTCTTGGCTCACAGGTAGCTGCTGCCCG
+AACTCTTAAACAAGCTAGCAAGCTAATTAGCCGTCATTAATAAACTGTCTCACGGCGATG
+TAGAAGAAGATCCAACATTTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGA
+ACCGAGCGAGAGTCGGTTTGCTTGTTCCTTTCCGCCAACTGATCTGGGGTCCTTTGGGGC
+TATTGGCCGGTCCAGGTAGCCCCAGGACCCAATGCGTGAGTTCTATTATAAGGTGTCGCC
+AAGAGGTTGCAATCTATGGCCGCATGATCTTTGCGGCAAATAGGCTCTTCGTACCGGAGA
+CTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCA
+GACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCGGCAGTGAGAGATGCGGGACC
+TCATCGGGCAGTTTCGACCCCGGAATGACCGGCGAACCTAGAAGAAACGGTATCAACTAT
+CTCGTATTTACAATTGATGAGCCACATGGGGGCCGGCATTGAAAGTACAGCACAGCGATA
+GAACACTATCGTTTGCTCGGCGCGCGATGTTTGAGTAGGACCACCGAAATGAGGGTGCTG
+GATTGTTCCGTTTATCTTTAGATGTATCGCAGCTGATCTTCAGCTCAGATGAACGCGCCC
+GGGCCACTACAACTGTCGGGGTGATTAGTATATAAAGGGCGCCCCGGGCAACAATCTGTT
+AGGACGGTAAACCTATAGCCAAGAACACTAGCAGAGTTCGTATGCTCCTGGGATAATAAG
+TTGCAACGTTCCAGCCTTACCTATAGATGCTCGTCATAGTCGATTTCTTGTTTTCTCAGA
+CATGTATTGTACAAAAGACTGCGTACAGATAAGGAACTGTTGCCGTGATTCATCATTGAC
+ACCGACTTCATAGCTCATTTTCCACAACCGAGACACTTTTGAGTTCATATTAGCCGGCAT
+GTTGGAGGCGGCCATAAGGTACGCTTGTGTCTCAACTCTGAGTGCGAACCGAGAGTAATG
+CGAACAACCGTACCATAAACATGGCCCGTCAATTATATCGGTAAACCATCTCAGCAGCAG
+CTCTGCCCACCCTAATCCTTCTGAGTTCCCGATCTATGTAACGGGATGCGTCGCTGCGTC
+AGATGACGACGTCCGACTCTTACATGCATTCAATACGAAGAACTAGGACCCCCCATCGTG
+CCTATTAGGAGGATTGCAACAGCATTAAGGAGTTTCTTTCCCCGGAACTTAGGGGCTCCT
+GAACATCTCGTCGGCAAGGCAGTAGTTGGTACTCGGTTGAGGTGGCCGCTCAGTCCTACT
+CAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACTACAAGA
+AGCTCATTCGTTGGAAAGAAAGCGGGTCTCGTCACAATCCTATGTAGCTAAATTGATGAT
+GGACTAAAACATAGGCTTACGAGCACAAATCCTAGCATAAACATCTAGTCAAACGTCGCC
+CATCGTCCGTTGCTGGGGGGATTGCGTGACCATAACAATTAATTTCCTCGGGTTACAGTT
+TCATGGCTGCACTAGACTCACGAATCACAATTACTGTAGTACTAAATGACAGTCTGCATT
+CTACTTAGCGCTTATGATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAAGG
+CGAAAGGCGGATAAAGGAGTTGAGGGTTACATACCATAACAACGGAGTCACAAAGGACAT
+AGGGTTTCACAGAATACCGGACAAAGAGCAACTATTACCATATCCAGACCGGCGTTCCCG
+CCGTCCGCGACATGCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGCAGAAAGTTGC
+CAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCGCAGATAAGGGCATGAACGG
+GTTTTATACCGGTTCATCCCATTAGATTCTTCGGAAATCGGGGCGCGACCGATGTAGAGC
+CGGTGTAATAGCACATCCATCCGCAAGGCGCACCGCAACGTGATGAACCCCTAAGGTGTT
+CTGATGCACCGGTTAGGACCTTCCGAATACTACACTTCAAGCTGGAATTGATCACGATCG
+GCTCTGTATCGATATATTATCCGTATGCACCCGCACGTAACACTTCCAATTATTGTGGAA
+CAGATGACTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCTCAAACACCGCAA
+TTATAAAAAACTCATGGTGTTCTAAATCCATGTGTCATAATGAAAGCGATATATGAGTGT
+TCTTACGGGAATCTTAGAGGAGCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGCA
+CAAAAGACAACATGCTCTCTGAGCTCACCATAGCGACGCCGACGCAAATCATCAACCTAG
+GCCACTCTCGTGAGGACCGTCTTCCCTGAGCGATATTTTTGACGGGGTGCTGGATGTAAC
+CCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAG
+GCGCGAATTACTATACGTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTGACTAGTGGGG
+GCTGTGTCGGGCCGTCATTATCCAGGGGCTTTAAACCATGTGTGGTAGTGTTGCCAAGTT
+AACTGCCCAGAGCATCCTAAGGCTCATTGGAGCAGTAGGTATGGACGCACCCCTGAAGTG
+CTCCCGATTTCACTCACGTATGGGTAGTGGAAGTTGCTACTATAATACACAGCACGGTGG
+GGCCGATGCGCCACAAAATTAACGGTAGAGCATATTCTGCGACCTCCCCTAAACTGCTAT
+ACAGTTGTCAATGACAATACGAGCCACCTCATCTGACGCCCGGAGTGAACCGCAGGAATA
+GCTGATGGTAGAATTGCGGAGTAATTGGATCGATTTTACGACCCAAGGTTACAACCGCCT
+AAGAGAAGACGCACTGGATATTTGAACCAACGCCCCCAGCGGTGGAATGTTAATCCATGA
+CGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACTAATACGATAGTATAGATCCT
+CCTGCTCTCTAGTATGTTGGCCGATCCCCTCGGTCCGTGAGTTAATGCACCACTCGAGTA
+TACAGCCTAGACCATGAGTGGCCGACTGCAGAATTTTTGACAAAAGTCTTCTTTACCAGA
+GATTGGCAGCCCGGCGTTGGTCATGGTGCTGTTACCAGTCGGGTGGGCGCGAAGTATAGC
+TGTGGAGGGCACGTCCCGACATTCCTAGACGATCGTCATGGATTTTGAACGCACGCATAC
+GCTATCGAGTTCCGCAGAGTTCACTATATGGCACCTACGCTGAGGGGCCGCGAGGTTCCG
+CTGCGCTCATGACTACACTTCCGTATAGGAGAATAGGTCTCTATTACTGAAATAATTGAC
+CGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTCGCTTGGCATGCCTCGGGGGCTAC
+ACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACTTCGGCGTAA
+CTGTGCCAACGCTTAGCCCCCCCATCCGATAGGCTACCTATACTTATGAGGATCTCAAGT
+TATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCACACGGGCCGCTTAATTCCGTTC
+ATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTG
+TAGAACCCAACAAGCACTTTATCAAGCGGGACGTAGAGAAGCTTGGTCGAAGTTATACGA
+CGGCTTGTGTGGGTGAGATAACAGCAATAGCCCTGGCATGGATCTGCCGTGGACCGCACC
+ATCTGAGTACAGTAATAGCGCATGTCAAGCAGAGGAACCTGAGACTATTACTCTTAAGTT
+CTGTTAGGTTTCAGGATGATGCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGA
+CGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCGAACCGTAGATTTAGAACTGCATCG
+CACTCACTTCTGTGTCTGCCGCAAGTATGAGTATGACGCTCCGGTTGGCCTGTCCGCCCA
+TGGAGCGCTTATCACTATGTAACCGGGCGCTCAAGAGAGCCAAGCTTCCACAGTGACGTA
+GATCTTACTATTGGGTCGGTTTGCCTGTTTGTCTAACAGA
+>ref3
+TGCATCCTTCCCGACACTCCAGAGCCGCTAGACACATGTATGACCATCCGGTGTGGTCAC
+AATTTGCATCGCTCCATTCTTGGAAGTTAAAAAAGGGTATCCCCGCCAGGATATGGGCCG
+TAGTACCCAATCACGTTCCTGCCTGTAGTGACATAGCTCAACGTGGAAGGAAATGTGCTT
+CACGTACGGTCTGGTAGAACGGGTTGATGCCCGACCAATCATTGATTTCCGGCGTCAAGG
+ACCATCATGAAGGATCATTCCGGACCCGTTTTTCTGTACACCAAGGCAGTTCGCACCACT
+TGCCGTCCAAGTGCAATGGATCACGTTAAGTTATAGATATACGAGTGCACGCGAACAGTC
+TTAAAATGTAATAGTGCCTGAATCTAGCCCCATGCAAGTGGATAGTCGGACGTTAACTCT
+CAGCTAAGACTGAGGCGCCATTCAGTCTGACACTGTCTCTAGACGACTTCCAATCAGAAT
+TAATGCTGCTAACCGTTCACCGAACGTTACGGATAGGACAAGTCCCAAAACTCTGTTATG
+AATGCCCGGCCAGCTGAAAAAAAAAAACATAACAGACTGACGAATTAGCGCCGTGGGGAG
+AAAAGAAACTATCGCACCCTTACGGGGGGCAGACATCACGCAGCTAGTACCTCGATGTCA
+TTATCTGACTCCTATGTTCCACACTCAGGGAGAGATTGGCTTGGAGGCATTAGGGGTTCT
+AAGACCTGCGATGCTACATATCAAGTCTACGACTGCTCGCATCGTTTTTTGGCCCCAGAT
+TACTGCATGTGAATGAGACATTCTCTCTTGCGTTCTCCTAGCATTGGAGATGTGTAAGGA
+CGGATTTCGGCGAAACACTTGGCAGAAACATTAAGAAAAATATCCTGGGTGATCTGATCC
+AAATCGGGAGGGGGAGGAGCCGGTGTAGATCCTGTCTCTGTGTCGTTCGAAATATGCGTA
+TCACCACCCTACGGAGGGACTGAGATCGCTTGCACCAGATTTTATGCGGTGGTTACGGCC
+GGTTCTTTGGAATAATTCACCGCCCACAGGGCTAAGGCACGTATCATCGTCCGAGCCTAT
+GAGGAACAGTCCATGACATTTCTTACCCATCGCACAGCGCAACCCCACACACTGTACATC
+CAACAGGTGTCGATCTAAATGGAAGGCTGTCGTAAGCGTTACTTCGTCCCCTCCATCACG
+TGAGGTAGCCGCATCACATTCAGGCTCGGTCTCCGGGTTTCATGAACCTCGGTTGGGCAG
+TGACGCGAAGTTCAGTTACGGAGCCTTCTCCAGGGTAGGTGCAAGTGGAGTACTAGGTTG
+GTGGACTAGGCCAGCGCACGGTCCAGAGGATCAACTAACCAAGAGTACAGGTGGTTGTCC
+ATCATGCCCGATCGGGTTGCGTACACACTTAGGGTCGTTCGGCACTTAGATTAGACAGGA
+CATTTTAGCCACCAGTATATACTCCGGAAGTCATTAACCACGGGTCGCTCCCCGAGACTA
+GCGACCACCGTCCCGTTCTCGAGCTAGGAGTAACACGTAGAACGTTTTCACTCTAGATCT
+CAAGACGTTTTTGCTCTCGGGCCTGCACAACGTCCGCGAACTGACAAAAGGGAATTTGGC
+GGGTCCGGCAATGCACGCGGGCGCGATATCCTGGTATACCACGTATCGTTTATCCGTTAG
+AGTAACTTCCCTTGTGCGTGGGGCGTTAAGCATTAAAGTAGAGAAGTATTCTCACCAGCC
+TGAACCGGCTAGTTCCACTGGTTTTTACGTTGCTTCCATACGACACAGTTTCTCTCCAAG
+GATTGCAGTGGCGATGTCGCACGAGAATCCCCGGAGAAGACTAACTCCGTTAGCCCACGA
+CCTTGTCTTTTATAACTTTCCTTTACTACCTGTTACGCATTGATTATTAGTATGATACTT
+GTGGTGACTGTTCGGTGGCTCCAGTGCGCTAGTTCGCATTTTCTAGCGCGCGCGTGAAAC
+ACCCCATGCGCAGGATAATCTGGTATTTTTTGGTGGATTTGCCTGTCTGCGAGAAAGGAG
+TGCTTCGATAGTGGTATAGCCAGTGAGAGGCGAATACAGACGGAATTCATAAGCCTTGCT
+CTTCCGTGCCTTACTACCGCTCGCGGAAGGCATTCGAGGAACATAAGGTCGTGGTGGGCG
+ACAGCGAGGCCTCTTCTTAATCGCGGGGTCTTCCGACACAGTCTACAACCTTGATACATT
+GAACCCTCCAAGCTATGTTCGTCATGCTCGGAGATATACCACTGAGAGCGGCACACTTTA
+GCATAGGCCTTTACCCACTGCGATACAGACACGACATCGGGCGGAAGTACCGTTGTATTG
+TCTCGCCCTGGCAGTAGCTCTATTAGGCGCACTTGAATTGGTGGATGCTGAAAAGGGCTC
+>ref7
+GTCGCTTAGGGTCGTTCCGTCGAACCTTCTACACTGCTTTGTTCTGGTCCGCCAGTCCAC
+TTATCCCACCGCTAGCCTTCGCTTGTCACTTGGGCATTTGTCGCCCCTTTGGGCGCGGTA
+GGAGGGGCTTTCGGGAAGGGGACACGCCCCCCACGTTGAACGACTGGCGTAATTAGCACG
+CCCGTGGAGTGATATGGTTGTTCGGTAACACCGCTGGAATAAAACCACCCCCAGCGCATT
+CCTTCCGGCCTTTTCCGACTCACCAAACTTTACAGTGATACAAGAAGATAGAAGTTCCGT
+TCTGTCCAAGGCTCCGATCACTTTTCTGTTGCCGACTTCTGTAAAGCGTCGCAAATACTA
+TAAGACGACCCTCATTGTACGAAGGCTGCGGACTCTATGTAGGCGCCATAACGGTCCACT
+AGCAAGTGTTCAACCGACTCTTCCCGTTGGGGCTAGATTACATTCCGGGAGGTTCGACAA
+GGGCATCCTTGGCGGAAGAGGCCGCGGCACAAATTAGGTTGAGCGAAGTAATTATCGCGA
+GTGCCGATTAGAAGCCGATCTTGGGGATGACTGTACTAACGTCTGTCGGATAGTGTTCGC
+TCAACCGCCACTTGGTCGTTTCTACGCCCGTGGTGCTGAGCGCCTCCTAGTCTACGGCTA
+GGATCCTCCTCGAAACTTAGCATTGCAGGCACACTTGATGACACCTACGTATCACGCGTC
+CCGCAAGTGCTACTCAGCTCTTGTGTTCCGGTAACAATACACATTGGACGTGCATGACTC
+TTCAATGCTCAACCGGCAGCGCCGAGCAGTTCGACGATGGTTCAGTGTTTATTGTCCCCT
+GCACTCGGGCACGAGGCGGGATGCCGTGAATAGCTGTTTGTCTGATAGTCAGCCCATTTT
+CTATACGCCGAGTGCATCAGACACTCTGAATCCTGTTTAGTGATACTTGTGCATGAGGCC
+TGATTAAGGATACCTCAACCACACATTCTTGCTAGACGCATTTGTTATGTGAGGATGTGA
+CTGTGTCGATGTGATTATCTCCATTCACCAAACGCATCTGGCAAAAGAGACCAAACCACC
+GGTCGGACGTCGATGGAAGCTCACGAGCCAATGAAGAGACCACGTTACTCTATGGATAAG
+ACCTAGTCACGGCAGGTCCCGGGGTGAAATCATGGATGTGCTGTGCGTAATTTCCAAATC
+TACACGGGTACTATGTACGAGAGTTGGTTGCGGAAAGGAGAGTGCGGTAGCAAGACCCTT
+TAAGCAAAATCTACACGCAGACCGCTATGGGATTTATGGCACAATGGGAATACCGCCCCC
+GGAATAAGGCCTCTATATAAAGAGGTTGTTTGTGTGGACAGATAAGTCATATATGATTCG
+GGCATCGGTGAATACGGTTTCATCGTCTCGAACTAAGACAAGGGGTTATGTAAATAAACG
+TTTTGCGAGCGGCATTCTACTCGTGATTATCCGACAGGTCGCCGCTCAAGAGCCTTCTGC
+ACACGTTGGGGCTCCACGCGTAAGGTCCCCGGCAAACCCAATGAGAAACCATGTACGCTA
+CGCGCCTGTATATGACATTTGCCGGGCCTCTCCCCGAAAATGCACGTGGGGACACCTGAC
+GGACCCGAGTCCTACAGCCGCGCGGCCATCAGGTGTGGCTATGTTAAATTAAGCGTACAA
+CCATCTAGTGCGCAACGTCGCCGCCAGCAGATTGCCCCGTGGATCTGTCGGAAAGGCGAT
+CAACAATACGGGCACACAGCCGCCGTAGGTTTAAATTGCAAGGTGGTACACTTGCAAGCA
+CCATTTATACCAATGTTATTACCACGATCACAAACCGGCCGGCACGGTATGAAAACATGT
+CGAAAGGTAGTCCGCTCGCGCTCTTTTTAACAAAGTCAATTCTACGCGCGCGCCCAGTAA
+CGTCAGAGATTTAGTCAACCGCACTCCGCAAGTGGACGATAAGACTTACGTCAGCTACTC
+AATACAGACGCATGGTATATATCATCTCGGGTTCTCGTCGTGCCTGGGTAACTTTCCAAG
+ACCCCGGATCGCGCGGCATGTAAGCGCATATGATCTCGGCGTTAAGACGGAGCTGATGGT
+AAGGAGGACGGGCCGGCCGCTGAGGACAATTCATAGCCGGACATTATACCTCATGGACAC
+GTGCCTTTGCCACCCAAAGCAGCGCGGCCGCCTAAGTGAGTAAAAGACCTAGTAGCCCGT
+CGCATCATTGCGGGGTACGGAGTCTTTTCAGTGCTACCCCGCTATCTTCTGCATAATGCC
+AGGTAACAATGAGAACGGCCTGAGTACTAGATCCACCCTGCCCGGGGCTGAGATAGGGTG
+ATGTTTGCACTTCCGGGACATAGGTGCGTCGGTGGACGATTTATTGAAAGGGAATCGACA
+TCTTTCGCGCTCGACGTTAGAACGGGTATTAACATTGCCGGATGGGACAAAGGTAAAGGT
+GCGTTCATTGTATATTTACCTGGGTTTACAATTCACACGGGAAGAGAGGTAAATTAGGTA
+CTTAACTTGCGCCATCCCAAAATGCTCTTACCATAATAGCAAGCAGCCGAGCGCATGTGG
+GTCTGGCTGAAGTGCTTAGACCGTGTACGAGCGTTCCACAGCTCTCGCACTCATCCATTT
+GTACATTAGCCCAATGTCAGGCTTCCGATACCTTTGTTCCGTGTTGAGCCTGCCTACTAA
+TGTAACCGGGTGCAGAGACAGCTAACACACGATGCACTGTCACCGCTACTGTGATGAATG
+GACCTTCTACCGATCGGAGCCCTGGTTTTGGCTTTAATATGTGGAGATAATTGCAATAGA
+GCATGTATTTTATCACTCAAATTCACCCGATTCGGACGAGCCATCATATCTTTGTTTTTT
+GCACTCCCGGTCGTAATAGAGTGCTTTCGATCTCGGTTGAATTGAGGGCTCCTGGTCTTT
+GACGTGTTTGATTATCTCAGAACGAGCTACACAAGGCGGCCGCGGTGATCATAAATCCCA
+AGAGTTATCGTTTGTCCCACGCGAGCTTCCTATGAGTCGTAAATATGTTGCAGTTCGTAG
+TGTTTTGGCTATGCAATGTTCGAATCGTTGTCAGGGACGTAGCATACACACCGGGGCGTC
+CGGGGAGTTTTCCACTTTGTTCAAGGCTGAACGCAAGTGTATGTACTCTTGACTACATTA
+TTGCCAAAGACTATAGTATACGTGCGACCTTAAAGGCACGCTATTGCATGAGTGTTCCTT
+TACCCATCCGTCAGCACACATGTGTCGTTAAATCACTCGGGTGTTGCTTCCTCTGTTACC
+CACCCGTCCCCTGGGATGTACCAGATGTTCCCGCGACAATGGGTAAGGTCGAGAAGTTCT
+GCACTGGCCTAACTACATTACATGTCTGTCGATGTCAATTGGAGCTGTCTTCACGCACGA
+ATTAGTATTTTCTGTTATTAACTGAAAAATGGCCCTCACAAGCCATCTTTAGGTGTCGAC
+TTCCGTCCTGCATCAGGGTGAGGTACCATTTGAGGCTTAGGTAAAGACAGCAAGCACAGT
+CCCGACCCTGGATTCGTGAGGTATAGAGTACCCTGCCAGACGAAGACGGGTAGGCTTTTC
+AGCCACCCGAATTACACCCTGCTAGATCATCTCTTACTGCTAACTCGCTCTCTCATAAAA
+GATCTATGCGGAATAGCTAAGCTGGAGTCAGGAAGTTCAGGCATCTGTACTCTTTGCATT
+GGGAGCGTGGCTAATTATTGCTAAGATCCCTTACGCTCAAGCATTACCCCTGCTATCACC
+AGTGGGTGAAGGCGGCGGAATACGCCAAGTTTGTAACGTCACGGTCAGGATTATTACGCT
+CCGAAATTTGTAGAGATACGTGACGACATGCCTGTTCTGTTGCTACCCTTCTCTCACTTA
+GTAGACGCGTAACTTGACACTATCGTTTCAGTCATCCAAATTGGAGGCAACAACATCACT
+ATCGAGATTTCTCGGGCGGCATATAAACGCTACACGTGGGAGACAGCAGCTACTTCAGAG
+CGTTTAGCGGGGGCACTATTCAAAAGCGTCCAGCCGAGTTCTACGTGCAATCTCTGAATG
+AACACAAAACCACTGCTGGTGAGGTTCATGTCTGCGTTGGTTGACCTGCCGGACTTGAAG
+ACTGTGAGCGGTTCCTTATTTATATGCAGCAAAGCTAAGTAAGAGGCTGGAAGACGCCTT
+TAGGCGACCGATATACGCCAGGTAATTCACGATTTGTCGCCCCATGCGTGAGGATTTTCG
+GCGGCAATTAGCAGTCTGTGGTAACGATAGCACGCTAAGAGTAAGTGTTTGAACTATCTC
+CTCAAAATTAGGGGTATAGATAGAAGGCGATTGAACGGCTCTAGCGCACGTCTAACCCAT
+ACTTATGTGTGTATCTTAAGGTTTCTACTAACAATAAGGGCATGGATGGAAGCGCGAGAA
+TTAAGGAGATAGCATCGAAGCTGTTGCGGTTTTTAGCTTAGCCCGCGAGAATCTCGGAGT
+ACCTAATTTGTGTGAACGAACGCGCGGTGGTGGAATCTCCAGGATGCGGCGACCTATCGT
+ATGTTTAGGTGGCATATTAACTGCGTCACGGCCGCACCAGCCCCGGGCCCTGTCCTAAGT
+CCATGCTTTCGCATGTGTGAAGCGTGCATTTATCCTACCCCGTGTTAGGGCTCTTTCTAT
+ATCGCGGCCCCGAGTCTTTACACATACAGCAGCACTACATTTTTATGCCAATTGCTACTT
+GCGTGGGACGCAGTTGAATAGCCGAATTAGCGTTACACAAAGCAAGAGACGTGACATCCG
+ATAGACTGATTTACTTCTGAAAATTACCGAGTCTGCCGGTCGTATGTTTTAATCAGCCGT
+ATCGTAATCTCTCATTCTTCTCGCACATGAGTACCATCATTCGGTTATTTGGGTACATGG
+GCGTATCCCACAAACGTTTTTCTTGTACGGAGATCTTTGCATCACGGACGTCGAATCGAT
+TTTTGTTTATTACGACAATAGACCATATCCTGAGTTTATAGGCTATTTGGTCTTCTGAAG
+TAAACCGAAGACTGACGTATTCCGCTGACGAAGCGTATAGGTTCTACCCAGAAATCATTC
+CACTCCGCTCCCTGCGAGTCAACGCCAGAACTTGTCCAGTGGTCCTTATCTCTTAACGAG
+AGACTCTGGTTGGGTCGTGATGAGGTACCCTCGCACAGATGCCTCTACTGCTGGTTATTA
+TAGGAGCAAGAGGCCAATTCTGGAAGTTTTGCTATTCGAAATCCTACAGGATAGAGGAAC
+AAGCGCATGGACCGGCCGCGGAAACACAGTCTCTATGTACGCGTGATAGCAAGTCACGAA
+CCCCTCCTTCAAACGACATGTCCAGCGTAGTAGCTCCCTGATCCCAAATGTCCAGTGCTC
+CAGGGTTGCTGAACGACCACCGTCTAACTGACGTTCGCGTCGTCCGTGACAGATCGAAAT
+CTAGCAGCCGCATATAAGTACGACTCTTAAAGCTATAACATTTGAACAGCGGAAGTTAGA
+TGAGGGTCGATAAGTCTGCCTAGAGTGGCTGCTGAATACGTACGCCGTATATTTACAAAA
+ACCGATAGTGCCGTCACGGGAGGAGAATGTTGCAGGTACAGGCTCGCGGCAAAGGGGTCG
+AGGCGCGCGCGAACCACATTGTGATGCCAGGCCTCGTAACAACAACATTATCGTGCCAGT
+TAATTCCTTTCCATGCGCAAAGTCAAAGCGAGAATCCTATTGTCTCATGCTTTTCCTGGT
+GTCCAGAGGGGCAGGGGGTTAAAAGGCAGTCGGTCTTGGCTCACAGGTAGCTGCTGCCCG
+AACTCTTAAACAAGCTAGCAAGCTAATTAGCCGTCATTAATAAACTGTCTCACGGCGATG
+TAGAAGAAGATCCAACATTTGCGATCGAAGCCAACTCGAACTCCTACGCCAGTGGGGTGA
+ACCGAGCGAGAGTCGGATTGCTTGTTCCTTTCCGCCAACTGATCTGGGGTCCTTTGGGGC
+TATTGGCCGGTCCAGGTAGCCCCAGGACCCAATGCGTGAGTTCTATTATAAGGTGTCGCC
+AAGAGGTTGCAATCTATGGCCGCATGATCTTTGCGGCAAATAGGCTCTTCGTACCGGAGA
+CTGGTTGAGACTATTGGGGGCAGCGATCAGGTAATTGAGCTACGAATGGAGCAAGAGTCA
+GACCTGGTAGGCCTTTCCGAGTGACACAACTAGTGTTGCGGCAGTGAGAGATGCGGGACC
+TCATCGGGCAGTTTCGACCCCGGAATGACCGGCGAACCTAGAAGAAACGGTATCAACTAT
+CTCGTATTTACAATTGTTGAGCCACATGGGGGCCGGCATTGAAAGTACAGCACAGCGATA
+GAACACTATCGTTTGCTCGGCGCGCGATGTTTGAGTAGGACCACCGAAATGAGGGTGCTG
+GATTGTTCCGTTTATCTTTAGATGTATCGCAGCTGATCTTCAGCTCAGATGAACGCGCCC
+GGGCCACTACAACTGTCGGGGTGATTAGTATATAAAGGGCGCCCCGGGCAACAATCTGTT
+AGGACGGTAAACCTATAGCCAAGAACACTAGCAGAGTTCGTATGCTCCTGGGATAATAAG
+TTGCAACGTTCCAGCCTTACCTATAGATGCTCGTCATAGTCGATTTCTTGTTTTCTCAGA
+CATGTATTGTACAAAAGACTGCGTACAGATAAGGAACTGTTGCCGTGATTCATCATTGAC
+ACCGACTTCATAGCTCATTTTCCACAACCGAGACACTTTTGAGTTCATATTAGCCGGCAT
+GTTGGAGGCGGCCATAAGGTACGCTTGTGTCTCAACTCTGAGTGCGAACCGAGAGTAATG
+CGAACAGCCGTACCATAAACATGGCCCGTCAATTATATCGGTAAACCATCTCAGCAGCAG
+CTCTGCCCACCCTAATCCTTCTGAGTTCCCGATCTATGTAACGGGATGCGTCGCTGCGTC
+AGATGACGACGTCCGACTCTTACATGCATTCAATACGAAGAACTAGGACCCCCCATCGTG
+CCTATTAGGAGGATTGCAACAGCATTAAGGAGTTTCTTTCCCCGGAACTTAGGGGCTCCT
+GAACATCTCGTCGGCAAGGCAGTAGTTGGTACTCGGTTGAGGTGGCCGCTCAGTCCTACT
+CAATTTGAATGCTAGTTCTATGAATAATTAGTGCGTAGCCACACCGTAAGTACTACAAGA
+AGCTCATTCGTTGGAAAGAAAGCGGGTCTCGTCACAATCCTATGTAGCTAAATTGATGAT
+GGACTAAAACATAGGCTTACGAGCACAAATCCTAGCATAAACATCTAGTCAAACGTCGCC
+CATCGTCCGTTGCTGGGGGGATTGCGTGACCATAACAATTAATTTCCTCGGGTTACAGTT
+TCATGGCTGCACTAGACTCACGAATCACAATTACTGTAGTACTAAATGACAGTCTGCATT
+CTACTTAGCGCTTATGATCTCGCACCACTACAGCTGCAACCGTTCCTTTCGATGGGAAGG
+CGAAAGGCGGATAAAGGAGTTGAGGGTTACATACCATAACAACGGAGTCACAAAGGACAT
+AGGATTTCACAGAATACCGGACAAAGAGCAACTATTACCATATCCAGACCGGCGTTCCCG
+CCGTCCGCGACATGCGAAGGGGCTTGGGAGGAAGGTTTGGATTTCGTCGCAGAAAGTTGC
+CAGATGAAAAGTCACACGGATTTAACTTCTGCTCCCACGCGCAGATAAGGGCATGAACGG
+GTTTTATACCGGTTCATCCCATTAGATTCTTCGGAAATCGGGGCGCGACCGATGTAGAGC
+CGGTGTAATAGCACATCCATCCGCAAGGCGCACCGCAACGTGATGAACCCCTAAGGTGTT
+CTGATGCACCGGTTAGGACCTTCCGAATACTACACTTCAAGCTGGAATTGATCACGATCG
+GCTCTGTATCGATATATTATCCGTATGCACCCGCACGTAACACTTCCAATTATTGTGGAA
+CAGATGACTACTCCGAGATTCAGAAGGTTAGGAATGAGACACCTACCTCAAACACCGCAA
+TTATAAAAAACTCATGGTGTTCTAAATCCATGTGTCATAATGAAAGCGATATATGAGTGT
+TCTTACGGGAATCTTAGAGGAGCACCATCTGGAATAGGCCGGTTCGAAGCGGCTGTGGCA
+CAAAAGACAACATGCTCTCTGAGCTCACCATAGCGACGCCGACGCAAATCATCAACCTAG
+GCCACTTTCGTGAGGACCGTCTTCCCTGAGCGATATTTTTGACGGGGTGCTGGATGTAAC
+CCAGCACGCCGAGGTAGCCGTGTCGCTCTACACGCCGGCACGGATCGCTCCCTCGGGAAG
+GCGCGAATTACTATACGTCATGCCTCGAGTTCCTATAGAGTCGTAGTGTGACTAGTGGGG
+GCTGTGTCGGGCCGTCATTATCCAGGGGCTTTAAACCATGTGTGGTAGTGTTGCCAAGTT
+AACTGCCCAGAGCATCCTAAGGCTCATTGGAGCAGTAGGTATGGACGCACCCCTGAAGTG
+CTCCCGATTTCACTCACGTATGGGTAGTGGAAGTTGCTACTATAATACACAGCACGGTGG
+GGCCGATGCGCCACAAAATTAACGGTAGAGCATATTCTGCGACCTCCCCTAAACTGCTAT
+ACAGTTGTCAATGACAATACGAGCCACCTCATCTGACGCCCGGAGTGAACCGCAGGAATA
+GCTGATGGTAGAATTGCGGAGTAATTGGATCGATTTTACGACCCAAGGTTACAACCGCCT
+AAGAGAAGACGCACTGGATATTTGAACCAACGCCCCCAGCGGTGGAATGTTAATCCATGA
+CGGGAAGACGGAGCGGATACTCTTTCATTGAAAAAAAACTAATACGATAGTATAGATCCT
+CCTTCTCTCTAGTATGTTGGCCGATCCCCTCGGTCCGTGAGTTAATGCACCACTCGAGTA
+TACAGCCTAGACCATGAGTGGCCGACTGCAGAATTTTTGACAAAAGTCTTCTTTACCAGA
+GATTGGCAGCCCGGCGTTGGTCATGGTGCTGTTACCAGTCGGGTGGGCGCGAAGTATAGC
+TGTGGAGGGCACGTCCCGACATTCCTAGACGATCGTCATGGATTTTGAACGCACGCATAC
+GCTATCGAGTTCCGCAGAGTTCACTATATGGCACCTACGCTGAGGGGCCGCGAGGTTCCG
+CTGCGCTCATGACTACACTTCCGTATAGGAGAATAGGTCTCTATTACTGAAATAATTGAC
+CGAAAACTCACTTGGCAGTTGTAGACATATGTGGTTCGCTTGGCATGCCTCGGGGGCTAC
+ACTAAATGAGATCCTTATAGTTGAAGCCCCAGCACGGTACCATATATAACTTCGGCGTAA
+CTGTGCCAACGCTTAGCCCCCCCATCCGATAGGCTACCTATACTTATGAGGATCTCAAGT
+TATGCTGAACAGACCCGATTCCTTGACTGAAACTCGCACACGGGCCGCTTAATTCCGTTC
+ATAGTGTGAGATTATAATGAGTAAACTTAGGGGACCGGTAGCAGGGTAACATTGAATTTG
+TAGAACCCAACAAGCACTTTATCAAGCGGGACGTAGAGAAGCTTGGTCGAAGTTATACGA
+CGGCTTGTGTGGGTGAGATAACAGCAATAGCCCTGGCATGGATCTGCCGTGGACCGCACC
+ATCTGAGTACAGTAATAGCGCATGTCAAGCAGAGGAACCTGAGACTATTACTCTTAAGTT
+CTGTTAGGTTTCAGGATGATGCGCCAGTTTCTTCTGTGCGTTGTGCTTAGCGTGAAATGA
+CGTCGGGCTCTCTTGATTTCAGATTCTTCTCCGTCGAACCGTAGATTTAGAACTGCATCG
+CACTCACTTCTGTGTCTGCCGCAAGTATGAGTATGACGCTCCGGTTGGCCTGTCCGCCCA
+TGGAGCGCTTATCACTATGTAACCGGGCGCTCAAGAGAGCCAAGCTTCCACAGTGACGTA
+GATCTTACTATTGGGTCGGTTTGCCTGTTTGTCTAACAGA
diff --git a/ariba/tests/data/clusters_test_write_report.tsv b/ariba/tests/data/clusters_test_write_report.tsv
index dc8d91d..9851c6a 100644
--- a/ariba/tests/data/clusters_test_write_report.tsv
+++ b/ariba/tests/data/clusters_test_write_report.tsv
@@ -1,3 +1,3 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
gene1 line1
gene2 line2
diff --git a/ariba/tests/data/mash_test_run.in.qry.fa b/ariba/tests/data/mash_test_run.in.qry.fa
new file mode 100644
index 0000000..4ac8494
--- /dev/null
+++ b/ariba/tests/data/mash_test_run.in.qry.fa
@@ -0,0 +1,10 @@
+>qry
+ACATCGGCTCCCCCCACAATGTTTAGTTCGGTGTCAAACGCGCGTTATCTGAGGGCACTA
+ACCGTAGGGTTACCACGGAGGTAATCCGTATGACACAAGGCATGCTCAACTACACTAGCA
+GTCAGCCCGTACGCACGCCGCTAGAGCAAACCGGTTATTGGTGCATTCACCGCTTAATGC
+CAGCACAGATAAATCTCCTGGCGTGATCCAATAGCAACATAGCCTGTGGAAATTAAACCT
+TGGCTGCAGACGATTAATACTATTCTATCGAACACGAAATACTCACTTCCAATTTGTTTA
+GCCTATACTGGGAAAGCGGAGGGGATACCATATGCTATCGCCATATTATTCTTCGATCTA
+CTTTCTTCTCCCGAAGAGGCGCTACCCTACCGTTGGGTAAAGCATGAATAATTATTTCTG
+CTCACTGATGGATTGCCATATGTTCCCAACTTCGTGAGCTGCACACGCAATAAATGAGAC
+TGGGTGACTCTCTCTTGCTT
diff --git a/ariba/tests/data/mash_test_run.in.ref.fa b/ariba/tests/data/mash_test_run.in.ref.fa
new file mode 100644
index 0000000..44736d8
--- /dev/null
+++ b/ariba/tests/data/mash_test_run.in.ref.fa
@@ -0,0 +1,40 @@
+>ref1
+ACATCGGCTCCCCCCACAATGTTTAGTTCGGTGTCAAACGCGCGTTATCTGAGGGCACTA
+ACCGTAGGGTTACCACGGAGGTAATCCGTATGACACAAGGCATGCTCAACTACACTAGCA
+GCCAGCCCGTACGCACGCCTCTAGAGCAAACCGGTTATTGGTGCATTCACCGCTTAATGC
+CAGCACAGATAAATCTCCTGGCGTGATCCAATAGCAACATAGCCTGTGGAAATTAAACCT
+TGGCTGCAGACGATTAATCCTATTCTATCGAACACGAAATACTCACTTCCAATTTGTTTA
+GCCTATACTGGGAAAGCGGAGGGGATACCATATGCTATCGCCATATTATTCTTCGATCTA
+CTTTCTTCTCCCGAAGAGGCGCTACCCTACCGTTGGGTAAAGCATGAATAATTATTTCTG
+CTCACTGATGGATTGCCATATGTTCCCAACTTCGTGAGCTGCACACGCAATAAATGAGAC
+TGGGTGACTCTCTCTTGCTT
+>ref2
+ACATCGGCTCCCCCCACAATGTTTAGTTCGGTGTCAAACGCGCGTTATCTGAGGGCACTA
+ACCGTAGGGTTACCACGGAGGTAATCCGTATGACACAAGGCATGCTCAACTACACTAGCA
+GCCAGCCCGTACGCACGCCGCTAGAGCAAACCGGTTATTGGTGCATTCACCGCTTAATGC
+CAGCACAGATAAATCTCCTGGCGTGATCCAATAGCAACATAGCCTGTGGAAATTAAACCT
+TGGCTGCAGACGATTAATACTATTCTATCGAACACGAAATACTCACTTCCAATTTGTTTA
+GCCTATACTGGGAAAGCGGAGGGGATACCATATGCTATCGCCATATTATTCTTCGATCTA
+CTTTCTTCTCCCGAAGAGGCGCTACCCTACCGTTGGGTAAAGCATGAATAATTATTTCTG
+CTCACTGATGGATTGCCATATGTTCCCAACTTCGTGAGCTGCACACGCAATAAATGAGAC
+TGGGTGACTCTCTCTTGCTT
+>ref3
+ACATCGGCTCCCCCCACAATGTTTAGTTCGGTGTCAAACGCGCGTTATCTGAGGGCACTA
+ACCGTAGGGTTACCACGGAGGTAATCCGTATGACACAAGGCATGCTCAACTACACTAGCA
+GCCAGCCCGTACGGACGCCTCTAGAGCAAACCGGTTATTGGTGCATTCACCGCTTAATGC
+CAGCACAGATAAATCTCCTGGCGTGATCCAATAGCAACATAGCCTGTGGAAATTAAACCT
+TGGCTGAAAAAGATTAATCCTATTCTATCGAACACGAAATACTCACTTCCAATTTGTTTA
+GCCTATACTGGGAAAGCGGAGGGGATACCATATGCTATCGCCATATTATTCTTCGATCTA
+CTTTTTTCTCCCGAAGAGGCGCTACCCTACCGTTGGGTAAAGCATGAATAATTATTTCTG
+CTCACTGATGGATTGCCATATGTTCCCAACTTCGTGAGCTGCACACGCAATAAATGAGAC
+TGGGTGACTCTCTCTTGCTT
+>ref4
+ATCACCTATAACGAGGTTCAACTTCACACGACCCTAGTTATATGGCCGACTGCACTGCCC
+ATCGGGTGCACAAAACTAGTCCGCCGTGTGCAGACCTTCCCATGAGCTGGATGGGCGCGT
+TTCCCTACTTCATTCCGAGTCGGGCTGCATACTCGACCTCCATCCTAGGTGCGTGTGATA
+CTGATGATCGGCGCACTACCCTCTTACTCGTTTGTGTTGTCGACACTCGCAGCAGAACGC
+ATCCCACGGAGGGGTCATAAGAATAGGGGAGAAACAACTATACGTTTCTGAGACCAGTTA
+TAAAGTGGTGGACCTGCGTGCAGACTCAAACTGCGAATTGAGTCACTCCTAACCTCCACA
+ACGGCTTGGGTCAACCAAACGTGGTCTAGTTACGCCGGGTAAAGGCACCGACTGGCCAGC
+TGGGAAGTTGGGCCGGTGGAGGCCCTGATGCGCGAGGAGCTGTGTCGTTTCCAAGTATAG
+CGATTGCAAAACGCTCGTCG
diff --git a/ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr b/ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr
new file mode 100644
index 0000000..cbc6cd2
--- /dev/null
+++ b/ariba/tests/data/read_filter_cdhit_clstr_to_reads.in.clstr
@@ -0,0 +1,18 @@
+>Cluster 0
+0 1000nt, >1... *
+1 76nt, >1/1... at 1:76:191:266/+/100.00%
+2 76nt, >1/2... at 76:1:312:387/-/100.00%
+3 76nt, >3/1... at 1:76:519:594/+/100.00%
+4 76nt, >3/2... at 76:1:649:724/-/100.00%
+5 76nt, >5/1... at 1:76:642:717/+/100.00%
+6 76nt, >5/2... at 76:1:770:845/-/100.00%
+7 76nt, >7/1... at 1:76:644:719/+/100.00%
+8 76nt, >7/2... at 76:1:760:835/-/100.00%
+9 76nt, >9/1... at 1:76:729:804/+/100.00%
+10 76nt, >9/2... at 76:1:846:921/-/100.00%
+11 76nt, >11/1... at 1:76:491:566/+/100.00%
+12 76nt, >11/2... at 76:1:617:692/-/100.00%
+>Cluster 1
+0 1000nt, >2... *
+>Cluster 2
+0 1000nt, >3... *
diff --git a/ariba/tests/data/read_filter_test_run.expected.reads_1.fq b/ariba/tests/data/read_filter_test_run.expected.reads_1.fq
new file mode 100644
index 0000000..0cd6db4
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run.expected.reads_1.fq
@@ -0,0 +1,24 @@
+ at 1/1
+GAAGGCGCCAGTTATTAACTTTCACCGTGTAAGTCGAGAAGTCGATACCACGTCGGCGGCCAAGTATCGATCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3/1
+TCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGATTCTTCAATTGTCTACAACATACAGCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 5/1
+CCGCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 7/1
+GCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 9/1
+TCGAAGACCTAGGCATATACAGGTTCAGGTTGGATGCTAGCCGATTCAATTGGACAAATGCCGCGAGCACGCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 11/1
+CTGCTTATTAATTTAGGATGATAGTCCATCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/read_filter_test_run.expected.reads_2.fq b/ariba/tests/data/read_filter_test_run.expected.reads_2.fq
new file mode 100644
index 0000000..351ec76
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run.expected.reads_2.fq
@@ -0,0 +1,24 @@
+ at 1/2
+AAAGCTAAACATACCAAACGGGATGTACATTTGTTTCGGCACGATATTTTACTTGATGCCTAGGGCAATCACACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3/2
+GAAGAATTTCGACGACTGATTACGTACTATAAAGAGGAGTCACCGTTACCATTCATATGGGCCATGTGTATATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 5/2
+GGCCGCACATCTAAAAAAAGTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 7/2
+CTAAAAAAAGTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCGGCTAGCATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 9/2
+TCTTTTATAGGGTGACGTAGATCCTCGACAAGGCGGGTACGATAAATTAGTAGAGAGTGAGCACAAGTCATGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 11/2
+AGAGGAGTCACCGTTACCATTCATATGGGCCATGTGTATATACGTCAGCGGTGCGCTAGAGGTGCGTTCGTGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/read_filter_test_run.in.read_store b/ariba/tests/data/read_filter_test_run.in.read_store
new file mode 100644
index 0000000..6333d3a
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run.in.read_store
@@ -0,0 +1,38 @@
+1 1 GAAGGCGCCAGTTATTAACTTTCACCGTGTAAGTCGAGAAGTCGATACCACGTCGGCGGCCAAGTATCGATCATGC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 2 AAAGCTAAACATACCAAACGGGATGTACATTTGTTTCGGCACGATATTTTACTTGATGCCTAGGGCAATCACACTG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 3 TCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGATTCTTCAATTGTCTACAACATACAGCGTG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 4 GAAGAATTTCGACGACTGATTACGTACTATAAAGAGGAGTCACCGTTACCATTCATATGGGCCATGTGTATATACG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 5 CCGCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 6 GGCCGCACATCTAAAAAAAGTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 7 GCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAAAT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 8 CTAAAAAAAGTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCGGCTAGCATCC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 9 TCGAAGACCTAGGCATATACAGGTTCAGGTTGGATGCTAGCCGATTCAATTGGACAAATGCCGCGAGCACGCATGG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 10 TCTTTTATAGGGTGACGTAGATCCTCGACAAGGCGGGTACGATAAATTAGTAGAGAGTGAGCACAAGTCATGATAT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 11 CTGCTTATTAATTTAGGATGATAGTCCATCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGAT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 12 AGAGGAGTCACCGTTACCATTCATATGGGCCATGTGTATATACGTCAGCGGTGCGCTAGAGGTGCGTTCGTGTATA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 13 AAAAAAAAAAAAAAAAAAAAAAAAAAGAGAGAGGGGGGGGGGGGGGGGGGGAAAAAAAAAAAAAAAAAAAAAAAAA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+1 14 GGGGGGGGGGGGGGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCCCCCCCCCCCCCCCC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 13 CTAACAATCGTCTGCTATACGCCAATTACACCGGCGATCCGCTAGTGCCAGAAAGAGTAACTAATTTTGCACATAA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 14 CTGAGCGTGGTTCGGGAGTTTGTCTCATGTGGGATGCCTTACTCGCCCAGTTTAGCTGTACTCAAGGACATGTCAG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 15 CTAAACTGGGCGAGTAAGGCATCCCACATGAGACAAACTCCCGAACCACGCTCAGTACAAAAATTTGTAGCAGATG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 16 AGATATAGTGCTAGACCTCTAACTAATCGGCGCCGGTGCGTAACTGCACCTCCAGGCAAGCAAAGCACTGCGTCGA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 17 ATTTGTAGCAGATGAATTGTACTACAGAAAAGGTTGCTGCGACGCGCCGAAATCGCGCTAGTCGACGCAGTGCTTT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 18 GTAGGCACGAATCCTCTAAGAAGTGCCGGGTATAGGAATCAACGAGATATAGTGCTAGACCTCTAACTAATCGGCG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 19 GGCATCCCACATGAGACAAACTCCCGAACCACGCTCAGTACAAAAATTTGTAGCAGATGAATTGTACTACAGAAAA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 20 CTCTAAGAAGTGCCGGGTATAGGAATCAACGAGATATAGTGCTAGACCTCTAACTAATCGGCGCCGGTGCGTAACT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 21 ACGTTAGAAAAGGATCCATTCTGGCGTTTAGGCCCTAACAATCGTCTGCTATACGCCAATTACACCGGCGATCCGC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 22 CTCATGTGGGATGCCTTACTCGCCCAGTTTAGCTGTACTCAAGGACATGTCAGCTAGTCCCTCGGAAGACTGTTTC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 23 TGAGAGCGCGCATGTTCTTACAGAGAAATAAGTAAAGATGGTCATGAGCCTATATCTCAACTCGACTCTAAGTTAC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+2 24 ACTCGGTTGTACACGTTTATTATGTGCAAAATTAGTTACTCTTTCTGGCACTAGCGGATCGCCGGTGTAATTGGCG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 25 GCAAGCCATGCTGCAAACTCCATTGTCACTAGGAACGATCAGGAGCTCCAGGCTCAAATCTCAGCCAATAACGCTG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 26 CATCGAACGTAAAGATAGTGAGTATCCGCATGGCGCCGACGCTAATAGTTCAGCAGGTATGAAATCAGGGGCTGTT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 27 GAGAAATTCGAAGACCTTCGAATGCTATATAATTAAGCCTACAGCGTGAACGAGTACATAGGTGCGTTTTGCGGAT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 28 CGCTCTGTAAGGAAATTATGATCTCTCGGGTCTACTCGATGCCAATCGCCCCTAAGGCTAATGACTATCAAAGCTG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 29 ACCTGCTCACCTACAGCTTTGATAGTCATTAGCCTTAGGGGCGATTGGCATCGAGTAGACCCGAGAGATCATAATT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 30 CGTAGTAGCCTATAAGTACAGGACATAGTGATAGAGATTGTAGTATTCCACGGACCTGATTCGGCTTCTATGAATC IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 31 GTCCGTGGAATACTACAATCTCTATCACTATGTCCTGTACTTATAGGCTACTACGTTGCAGCTAGAGGACGCGTGG IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 32 ATATAACCTCAGGCGTTGCAAATGCGTCTTTGTCGACGCTACTAACCGCATGGCCCACGGGAGAAAGTAGTCTTAA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 33 CGCCATGCGGATACTCACTATCTTTACGTTCGATGATACCCACAAAAACATGGCATGCGAATGCTCAGCGAGAAAT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 34 GGTCTGATCTTGCATTGTTAACGTTACCTTTTATTCCGGAACGGGTTAAATCTAATCCGCAAAACGCACCTATGTA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 35 GCGGTAACCAAGATTAAAACTTAAAACAGCCCCTGATTTCATACCTGCTGAACTATTAGCGTCGGCGCCATGCGGA IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+3 36 GGTTAAATCTAATCCGCAAAACGCACCTATGTACTCGTTCACGCTGTAGGCTTAATTATATAGCATTCGAAGGTCT IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/read_filter_test_run.in.reads_1.fq b/ariba/tests/data/read_filter_test_run.in.reads_1.fq
new file mode 100644
index 0000000..efdbc3f
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run.in.reads_1.fq
@@ -0,0 +1,72 @@
+ at 1:1:191:312/1
+GAAGGCGCCAGTTATTAACTTTCACCGTGTAAGTCGAGAAGTCGATACCACGTCGGCGGCCAAGTATCGATCATGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:519:649/1
+TCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGATTCTTCAATTGTCTACAACATACAGCGTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:642:770/1
+CCGCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:644:760/1
+GCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:729:846/1
+TCGAAGACCTAGGCATATACAGGTTCAGGTTGGATGCTAGCCGATTCAATTGGACAAATGCCGCGAGCACGCATGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:491:617/1
+CTGCTTATTAATTTAGGATGATAGTCCATCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:7:514:639/1
+CTAACAATCGTCTGCTATACGCCAATTACACCGGCGATCCGCTAGTGCCAGAAAGAGTAACTAATTTTGCACATAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:8:660:783/1
+CTAAACTGGGCGAGTAAGGCATCCCACATGAGACAAACTCCCGAACCACGCTCAGTACAAAAATTTGTAGCAGATG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:9:722:827/1
+ATTTGTAGCAGATGAATTGTACTACAGAAAAGGTTGCTGCGACGCGCCGAAATCGCGCTAGTCGACGCAGTGCTTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:10:677:814/1
+GGCATCCCACATGAGACAAACTCCCGAACCACGCTCAGTACAAAAATTTGTAGCAGATGAATTGTACTACAGAAAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:11:480:616/1
+ACGTTAGAAAAGGATCCATTCTGGCGTTTAGGCCCTAACAATCGTCTGCTATACGCCAATTACACCGGCGATCCGC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:12:401:533/1
+TGAGAGCGCGCATGTTCTTACAGAGAAATAAGTAAAGATGGTCATGAGCCTATATCTCAACTCGACTCTAAGTTAC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:13:32:158/1
+GCAAGCCATGCTGCAAACTCCATTGTCACTAGGAACGATCAGGAGCTCCAGGCTCAAATCTCAGCCAATAACGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:14:268:408/1
+GAGAAATTCGAAGACCTTCGAATGCTATATAATTAAGCCTACAGCGTGAACGAGTACATAGGTGCGTTTTGCGGAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:15:395:524/1
+ACCTGCTCACCTACAGCTTTGATAGTCATTAGCCTTAGGGGCGATTGGCATCGAGTAGACCCGAGAGATCATAATT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:16:545:678/1
+GTCCGTGGAATACTACAATCTCTATCACTATGTCCTGTACTTATAGGCTACTACGTTGCAGCTAGAGGACGCGTGG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:17:199:322/1
+CGCCATGCGGATACTCACTATCTTTACGTTCGATGATACCCACAAAAACATGGCATGCGAATGCTCAGCGAGAAAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:18:134:279/1
+GCGGTAACCAAGATTAAAACTTAAAACAGCCCCTGATTTCATACCTGCTGAACTATTAGCGTCGGCGCCATGCGGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/read_filter_test_run.in.reads_2.fq b/ariba/tests/data/read_filter_test_run.in.reads_2.fq
new file mode 100644
index 0000000..507e92b
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run.in.reads_2.fq
@@ -0,0 +1,72 @@
+ at 1:1:191:312/2
+AAAGCTAAACATACCAAACGGGATGTACATTTGTTTCGGCACGATATTTTACTTGATGCCTAGGGCAATCACACTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:2:519:649/2
+GAAGAATTTCGACGACTGATTACGTACTATAAAGAGGAGTCACCGTTACCATTCATATGGGCCATGTGTATATACG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:3:642:770/2
+GGCCGCACATCTAAAAAAAGTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:4:644:760/2
+CTAAAAAAAGTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCGGCTAGCATCC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:5:729:846/2
+TCTTTTATAGGGTGACGTAGATCCTCGACAAGGCGGGTACGATAAATTAGTAGAGAGTGAGCACAAGTCATGATAT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 1:6:491:617/2
+AGAGGAGTCACCGTTACCATTCATATGGGCCATGTGTATATACGTCAGCGGTGCGCTAGAGGTGCGTTCGTGTATA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:7:514:639/2
+CTGAGCGTGGTTCGGGAGTTTGTCTCATGTGGGATGCCTTACTCGCCCAGTTTAGCTGTACTCAAGGACATGTCAG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:8:660:783/2
+AGATATAGTGCTAGACCTCTAACTAATCGGCGCCGGTGCGTAACTGCACCTCCAGGCAAGCAAAGCACTGCGTCGA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:9:722:827/2
+GTAGGCACGAATCCTCTAAGAAGTGCCGGGTATAGGAATCAACGAGATATAGTGCTAGACCTCTAACTAATCGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:10:677:814/2
+CTCTAAGAAGTGCCGGGTATAGGAATCAACGAGATATAGTGCTAGACCTCTAACTAATCGGCGCCGGTGCGTAACT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:11:480:616/2
+CTCATGTGGGATGCCTTACTCGCCCAGTTTAGCTGTACTCAAGGACATGTCAGCTAGTCCCTCGGAAGACTGTTTC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 2:12:401:533/2
+ACTCGGTTGTACACGTTTATTATGTGCAAAATTAGTTACTCTTTCTGGCACTAGCGGATCGCCGGTGTAATTGGCG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:13:32:158/2
+CATCGAACGTAAAGATAGTGAGTATCCGCATGGCGCCGACGCTAATAGTTCAGCAGGTATGAAATCAGGGGCTGTT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:14:268:408/2
+CGCTCTGTAAGGAAATTATGATCTCTCGGGTCTACTCGATGCCAATCGCCCCTAAGGCTAATGACTATCAAAGCTG
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:15:395:524/2
+CGTAGTAGCCTATAAGTACAGGACATAGTGATAGAGATTGTAGTATTCCACGGACCTGATTCGGCTTCTATGAATC
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:16:545:678/2
+ATATAACCTCAGGCGTTGCAAATGCGTCTTTGTCGACGCTACTAACCGCATGGCCCACGGGAGAAAGTAGTCTTAA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:17:199:322/2
+GGTCTGATCTTGCATTGTTAACGTTACCTTTTATTCCGGAACGGGTTAAATCTAATCCGCAAAACGCACCTATGTA
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
+ at 3:18:134:279/2
+GGTTAAATCTAATCCGCAAAACGCACCTATGTACTCGTTCACGCTGTAGGCTTAATTATATAGCATTCGAAGGTCT
++
+IIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIIII
diff --git a/ariba/tests/data/read_filter_test_run.in.ref.fa b/ariba/tests/data/read_filter_test_run.in.ref.fa
new file mode 100644
index 0000000..12c5807
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run.in.ref.fa
@@ -0,0 +1,54 @@
+>1
+TGGCATAAGGCTGACCTTCGATGATAGGGCACCGTGATTAATGGATACAGCTAACTTTGC
+CCCTAAAGAAGAACTCTCATTGCCAATATCTAGGAAGATCCGTAAATGTAGACCGTGTGC
+GTTCAGGCGAGCAATTTGTCTGTTAAATATACGTAATTCAACAGCGTAGGTGATCACCCG
+TTATTGGCGAGAAGGCGCCAGTTATTAACTTTCACCGTGTAAGTCGAGAAGTCGATACCA
+CGTCGGCGGCCAAGTATCGATCATGCAAGCGTCAGACCCGCGAAGTCTAGCACAATACTA
+TTACCACATACCAGTGTGATTGCCCTAGGCATCAAGTAAAATATCGTGCCGAAACAAATG
+TACATCCCGTTTGGTATGTTTAGCTTTAAGCGCGACCGGCTCTAACCCAGCCACGCCGAT
+AGGGATTAGTTATTACCCTCTTTCCCAGCTCCGGTGCGGCCGACGCACATTGACCCGGAC
+GTCCATTATGCTGCTTATTAATTTAGGATGATAGTCCATCGTATAGCGTGCGTGTAAGTC
+GAGCCGGCCCGCCTCGTGGCTGGGATTCTTCAATTGTCTACAACATACAGCGTGCTTAGT
+ATCGTTCGTTAATGGCTATACACGAACGCACCTCTAGCGCACCGCTGACGTATATACACA
+TGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAAATT
+CTTCACGATCGAAGACCTAGGCATATACAGGTTCAGGTTGGATGCTAGCCGATTCAATTG
+GACAAATGCCGCGAGCACGCATGGTTGGCAGTATCCATCACTGGACTTTTTTTAGATGTG
+CGGCCATATCATGACTTGTGCTCACTCTCTACTAATTTATCGTACCCGCCTTGTCGAGGA
+TCTACGTCACCCTATAAAAGATCTGGGAAGGTGAGGCCGTCCTTAGATGGAGATTGCCAG
+AACTCAGGCATGAGTCTATGTCAGCAATATATGCCTTATG
+>2
+AGCAGAACTGACTGGTGGATTCTTGGAACCACGAGCAGGATCATATTGATAAATACATGA
+TAGCGATATAAGATGCAACGGTCTCATCAGAGTAAGAGTGCGGAGTTGTACAGCAATGCA
+GGATTGGAGGTCACATTGGAATGGTGACGCATGAGCCGTCAGAAGGGTCGGCCCGGGGGC
+ATCGTGCAACGAGGTCATAGTTGATCCCCACCTATGGGAATTCTGTGGGTTACGCCAATA
+ACTAAGAGCGTGCTTGCCCGTGTTTCAGGATGTCCGGGTCTAGATGACCACTTAATAAGA
+TCCAGTGGATATTCGGCTTCTGTAGCTTCCGTCAGTCAAGGACGCCAAGGTGCAACACCA
+GATGGCCGAGGCTTGAGGAGGCACATGATCCCTCTCCTCTTGAGAGCGCGCATGTTCTTA
+CAGAGAAATAAGTAAAGATGGTCATGAGCCTATATCTCAACTCGACTCTAAGTTACGGTA
+CGTTAGAAAAGGATCCATTCTGGCGTTTAGGCCCTAACAATCGTCTGCTATACGCCAATT
+ACACCGGCGATCCGCTAGTGCCAGAAAGAGTAACTAATTTTGCACATAATAAACGTGTAC
+AACCGAGTGTACCGTGAAACAGTCTTCCGAGGGACTAGCTGACATGTCCTTGAGTACAGC
+TAAACTGGGCGAGTAAGGCATCCCACATGAGACAAACTCCCGAACCACGCTCAGTACAAA
+AATTTGTAGCAGATGAATTGTACTACAGAAAAGGTTGCTGCGACGCGCCGAAATCGCGCT
+AGTCGACGCAGTGCTTTGCTTGCCTGGAGGTGCAGTTACGCACCGGCGCCGATTAGTTAG
+AGGTCTAGCACTATATCTCGTTGATTCCTATACCCGGCACTTCTTAGAGGATTCGTGCCT
+ACCGCCTTTTACCCAACACGAACTGCCACCTTGTAGGTATGCTGTTCCCTTCTTAAAGAG
+TGTTTTGCTAGCGGGTTTGTGGGTGGTATCATGGTTATAG
+>3
+GTTCTCCGCCAGAAGACGGGCGGAAGCGATCGCAAGCCATGCTGCAAACTCCATTGTCAC
+TAGGAACGATCAGGAGCTCCAGGCTCAAATCTCAGCCAATAACGCTGGAAGCCTGGTCAG
+AGGGACAAGTACGGCGGTAACCAAGATTAAAACTTAAAACAGCCCCTGATTTCATACCTG
+CTGAACTATTAGCGTCGGCGCCATGCGGATACTCACTATCTTTACGTTCGATGATACCCA
+CAAAAACATGGCATGCGAATGCTCAGCGAGAAATTCGAAGACCTTCGAATGCTATATAAT
+TAAGCCTACAGCGTGAACGAGTACATAGGTGCGTTTTGCGGATTAGATTTAACCCGTTCC
+GGAATAAAAGGTAACGTTAACAATGCAAGATCAGACCTGCTCACCTACAGCTTTGATAGT
+CATTAGCCTTAGGGGCGATTGGCATCGAGTAGACCCGAGAGATCATAATTTCCTTACAGA
+GCGTAACTGCGGCTGCACATACAGCAACTATTGTAGGAGGATGGATTCATAGAAGCCGAA
+TCAGGTCCGTGGAATACTACAATCTCTATCACTATGTCCTGTACTTATAGGCTACTACGT
+TGCAGCTAGAGGACGCGTGGTACATGACAAGTTACCGTGATTACGGAGTCTTGCGGGGAT
+ACCGCTAGGATATTTTATTAAGACTACTTTCTCCCGTGGGCCATGCGGTTAGTAGCGTCG
+ACAAAGACGCATTTGCAACGCCTGAGGTTATATGCGGTGGAGGATGGACGTGACCTGTGC
+AGGCTAAGAGACCATTTTAACGCGGATACTTAATATTAATCACGAGTCAGGAGCGTGACC
+GTTTCACAGCAATCGTCCATTACTTCGGGTCAACGTCCGCAAAGTGTATCACGGCTGCAT
+TGGCCCCATCGCCGGTATCTTGGGGTATAGATGCTAGTATATGCTCATGCACCTTGCAAT
+ATTCGCCGTTAGAGACACAATAGGTAAAGAGCAATCTAGT
diff --git a/ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr b/ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr
new file mode 100644
index 0000000..d80894b
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run_cdhit_est_2d.expected.clstr
@@ -0,0 +1,42 @@
+>Cluster 0
+0 1000nt, >1... *
+1 76nt, >1:1:517:657/1... at 1:76:517:592/+/100.00%
+2 76nt, >1:1:517:657/2... at 76:1:657:732/-/100.00%
+3 76nt, >1:2:629:751/1... at 1:76:629:704/+/100.00%
+4 76nt, >1:2:629:751/2... at 76:1:751:826/-/100.00%
+5 76nt, >1:3:275:406/1... at 1:76:275:350/+/100.00%
+6 76nt, >1:3:275:406/2... at 76:1:406:481/-/100.00%
+7 76nt, >1:4:396:513/1... at 1:76:396:471/+/100.00%
+8 76nt, >1:4:396:513/2... at 76:1:513:588/-/100.00%
+9 76nt, >1:5:446:575/1... at 1:76:446:521/+/100.00%
+10 76nt, >1:5:446:575/2... at 76:1:575:650/-/100.00%
+11 76nt, >1:6:466:586/1... at 1:76:466:541/+/100.00%
+12 76nt, >1:6:466:586/2... at 76:1:586:661/-/100.00%
+>Cluster 1
+0 1000nt, >2... *
+1 76nt, >2:7:391:518/1... at 1:76:391:466/+/100.00%
+2 76nt, >2:7:391:518/2... at 76:1:518:593/-/100.00%
+3 76nt, >2:8:592:725/1... at 1:76:592:667/+/100.00%
+4 76nt, >2:8:592:725/2... at 76:1:725:800/-/100.00%
+5 76nt, >2:9:16:139/1... at 1:76:16:91/+/100.00%
+6 76nt, >2:9:16:139/2... at 76:1:139:214/-/100.00%
+7 76nt, >2:10:432:547/1... at 1:76:432:507/+/100.00%
+8 76nt, >2:10:432:547/2... at 76:1:547:622/-/100.00%
+9 76nt, >2:11:542:673/1... at 1:76:542:617/+/100.00%
+10 76nt, >2:11:542:673/2... at 76:1:673:748/-/100.00%
+11 76nt, >2:12:253:384/1... at 1:76:253:328/+/100.00%
+12 76nt, >2:12:253:384/2... at 76:1:384:459/-/100.00%
+>Cluster 2
+0 1000nt, >3... *
+1 76nt, >3:13:495:617/1... at 1:76:495:570/+/100.00%
+2 76nt, >3:13:495:617/2... at 76:1:617:692/-/100.00%
+3 76nt, >3:14:675:781/1... at 1:76:675:750/+/100.00%
+4 76nt, >3:14:675:781/2... at 76:1:781:856/-/100.00%
+5 76nt, >3:15:513:623/1... at 1:76:513:588/+/100.00%
+6 76nt, >3:15:513:623/2... at 76:1:623:698/-/100.00%
+7 76nt, >3:16:471:605/1... at 1:76:471:546/+/100.00%
+8 76nt, >3:16:471:605/2... at 76:1:605:680/-/100.00%
+9 76nt, >3:17:201:322/1... at 1:76:201:276/+/100.00%
+10 76nt, >3:17:201:322/2... at 76:1:322:397/-/100.00%
+11 76nt, >3:18:55:171/1... at 1:76:55:130/+/100.00%
+12 76nt, >3:18:55:171/2... at 76:1:171:246/-/100.00%
diff --git a/ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa b/ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa
new file mode 100644
index 0000000..4e8afd7
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run_cdhit_est_2d.reads.in.fa
@@ -0,0 +1,108 @@
+>1:1:517:657/1
+CATCGTATAGCGTGCGTGTAAGTCGAGCCGGCCCGCCTCGTGGCTGGGATTCTTCAATTG
+TCTACAACATACAGCG
+>1:1:517:657/2
+TCGATCGTGAAGAATTTCGACGACTGATTACGTACTATAAAGAGGAGTCACCGTTACCAT
+TCATATGGGCCATGTG
+>1:2:629:751/1
+CACCTCTAGCGCACCGCTGACGTATATACACATGGCCCATATGAATGGTAACGGTGACTC
+CTCTTTATAGTACGTA
+>1:2:629:751/2
+GTCCAGTGATGGATACTGCCAACCATGCGTGCTCGCGGCATTTGTCCAATTGAATCGGCT
+AGCATCCAACCTGAAC
+>1:3:275:406/1
+GACCCGCGAAGTCTAGCACAATACTATTACCACATACCAGTGTGATTGCCCTAGGCATCA
+AGTAAAATATCGTGCC
+>1:3:275:406/2
+CGTCCGGGTCAATGTGCGTCGGCCGCACCGGAGCTGGGAAAGAGGGTAATAACTAATCCC
+TATCGGCGTGGCTGGG
+>1:4:396:513/1
+CCGGCTCTAACCCAGCCACGCCGATAGGGATTAGTTATTACCCTCTTTCCCAGCTCCGGT
+GCGGCCGACGCACATT
+>1:4:396:513/2
+GTATGTTGTAGACAATTGAAGAATCCCAGCCACGAGGCGGGCCGGCTCGACTTACACGCA
+CGCTATACGATGGACT
+>1:5:446:575/1
+CAGCTCCGGTGCGGCCGACGCACATTGACCCGGACGTCCATTATGCTGCTTATTAATTTA
+GGATGATAGTCCATCG
+>1:5:446:575/2
+CGTCAGCGGTGCGCTAGAGGTGCGTTCGTGTATAGCCATTAACGAACGATACTAAGCACG
+CTGTATGTTGTAGACA
+>1:6:466:586/1
+CACATTGACCCGGACGTCCATTATGCTGCTTATTAATTTAGGATGATAGTCCATCGTATA
+GCGTGCGTGTAAGTCG
+>1:6:466:586/2
+ATGTGTATATACGTCAGCGGTGCGCTAGAGGTGCGTTCGTGTATAGCCATTAACGAACGA
+TACTAAGCACGCTGTA
+>2:7:391:518/1
+CCTCTCCTCTTGAGAGCGCGCATGTTCTTACAGAGAAATAAGTAAAGATGGTCATGAGCC
+TATATCTCAACTCGAC
+>2:7:391:518/2
+TTTATTATGTGCAAAATTAGTTACTCTTTCTGGCACTAGCGGATCGCCGGTGTAATTGGC
+GTATAGCAGACGATTG
+>2:8:592:725/1
+AACGTGTACAACCGAGTGTACCGTGAAACAGTCTTCCGAGGGACTAGCTGACATGTCCTT
+GAGTACAGCTAAACTG
+>2:8:592:725/2
+AGCAAAGCACTGCGTCGACTAGCGCGATTTCGGCGCGTCGCAGCAACCTTTTCTGTAGTA
+CAATTCATCTGCTACA
+>2:9:16:139/1
+TGGATTCTTGGAACCACGAGCAGGATCATATTGATAAATACATGATAGCGATATAAGATG
+CAACGGTCTCATCAGA
+>2:9:16:139/2
+TAGGTGGGGATCAACTATGACCTCGTTGCACGATGCCCCCGGGCCGACCCTTCTGACGGC
+TCATGCGTCACCATTC
+>2:10:432:547/1
+GTAAAGATGGTCATGAGCCTATATCTCAACTCGACTCTAAGTTACGGTACGTTAGAAAAG
+GATCCATTCTGGCGTT
+>2:10:432:547/2
+CTGTTTCACGGTACACTCGGTTGTACACGTTTATTATGTGCAAAATTAGTTACTCTTTCT
+GGCACTAGCGGATCGC
+>2:11:542:673/1
+CACCGGCGATCCGCTAGTGCCAGAAAGAGTAACTAATTTTGCACATAATAAACGTGTACA
+ACCGAGTGTACCGTGA
+>2:11:542:673/2
+CTGTAGTACAATTCATCTGCTACAAATTTTTGTACTGAGCGTGGTTCGGGAGTTTGTCTC
+ATGTGGGATGCCTTAC
+>2:12:253:384/1
+CTTGCCCGTGTTTCAGGATGTCCGGGTCTAGATGACCACTTAATAAGATCCAGTGGATAT
+TCGGCTTCTGTAGCTT
+>2:12:253:384/2
+TGAGATATAGGCTCATGACCATCTTTACTTATTTCTCTGTAAGAACATGCGCGCTCTCAA
+GAGGAGAGGGATCATG
+>3:13:495:617/1
+GCACATACAGCAACTATTGTAGGAGGATGGATTCATAGAAGCCGAATCAGGTCCGTGGAA
+TACTACAATCTCTATC
+>3:13:495:617/2
+AGAAAGTAGTCTTAATAAAATATCCTAGCGGTATCCCCGCAAGACTCCGTAATCACGGTA
+ACTTGTCATGTACCAC
+>3:14:675:781/1
+TTATTAAGACTACTTTCTCCCGTGGGCCATGCGGTTAGTAGCGTCGACAAAGACGCATTT
+GCAACGCCTGAGGTTA
+>3:14:675:781/2
+ACGATTGCTGTGAAACGGTCACGCTCCTGACTCGTGATTAATATTAAGTATCCGCGTTAA
+AATGGTCTCTTAGCCT
+>3:15:513:623/1
+GTAGGAGGATGGATTCATAGAAGCCGAATCAGGTCCGTGGAATACTACAATCTCTATCAC
+TATGTCCTGTACTTAT
+>3:15:513:623/2
+CACGGGAGAAAGTAGTCTTAATAAAATATCCTAGCGGTATCCCCGCAAGACTCCGTAATC
+ACGGTAACTTGTCATG
+>3:16:471:605/1
+TCCTTACAGAGCGTAACTGCGGCTGCACATACAGCAACTATTGTAGGAGGATGGATTCAT
+AGAAGCCGAATCAGGT
+>3:16:471:605/2
+TAATAAAATATCCTAGCGGTATCCCCGCAAGACTCCGTAATCACGGTAACTTGTCATGTA
+CCACGCGTCCTCTAGC
+>3:17:201:322/1
+CCATGCGGATACTCACTATCTTTACGTTCGATGATACCCACAAAAACATGGCATGCGAAT
+GCTCAGCGAGAAATTC
+>3:17:201:322/2
+GGTCTGATCTTGCATTGTTAACGTTACCTTTTATTCCGGAACGGGTTAAATCTAATCCGC
+AAAACGCACCTATGTA
+>3:18:55:171/1
+TGTCACTAGGAACGATCAGGAGCTCCAGGCTCAAATCTCAGCCAATAACGCTGGAAGCCT
+GGTCAGAGGGACAAGT
+>3:18:55:171/2
+TTTTTGTGGGTATCATCGAACGTAAAGATAGTGAGTATCCGCATGGCGCCGACGCTAATA
+GTTCAGCAGGTATGAA
diff --git a/ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa b/ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa
new file mode 100644
index 0000000..12c5807
--- /dev/null
+++ b/ariba/tests/data/read_filter_test_run_cdhit_est_2d.ref.in.fa
@@ -0,0 +1,54 @@
+>1
+TGGCATAAGGCTGACCTTCGATGATAGGGCACCGTGATTAATGGATACAGCTAACTTTGC
+CCCTAAAGAAGAACTCTCATTGCCAATATCTAGGAAGATCCGTAAATGTAGACCGTGTGC
+GTTCAGGCGAGCAATTTGTCTGTTAAATATACGTAATTCAACAGCGTAGGTGATCACCCG
+TTATTGGCGAGAAGGCGCCAGTTATTAACTTTCACCGTGTAAGTCGAGAAGTCGATACCA
+CGTCGGCGGCCAAGTATCGATCATGCAAGCGTCAGACCCGCGAAGTCTAGCACAATACTA
+TTACCACATACCAGTGTGATTGCCCTAGGCATCAAGTAAAATATCGTGCCGAAACAAATG
+TACATCCCGTTTGGTATGTTTAGCTTTAAGCGCGACCGGCTCTAACCCAGCCACGCCGAT
+AGGGATTAGTTATTACCCTCTTTCCCAGCTCCGGTGCGGCCGACGCACATTGACCCGGAC
+GTCCATTATGCTGCTTATTAATTTAGGATGATAGTCCATCGTATAGCGTGCGTGTAAGTC
+GAGCCGGCCCGCCTCGTGGCTGGGATTCTTCAATTGTCTACAACATACAGCGTGCTTAGT
+ATCGTTCGTTAATGGCTATACACGAACGCACCTCTAGCGCACCGCTGACGTATATACACA
+TGGCCCATATGAATGGTAACGGTGACTCCTCTTTATAGTACGTAATCAGTCGTCGAAATT
+CTTCACGATCGAAGACCTAGGCATATACAGGTTCAGGTTGGATGCTAGCCGATTCAATTG
+GACAAATGCCGCGAGCACGCATGGTTGGCAGTATCCATCACTGGACTTTTTTTAGATGTG
+CGGCCATATCATGACTTGTGCTCACTCTCTACTAATTTATCGTACCCGCCTTGTCGAGGA
+TCTACGTCACCCTATAAAAGATCTGGGAAGGTGAGGCCGTCCTTAGATGGAGATTGCCAG
+AACTCAGGCATGAGTCTATGTCAGCAATATATGCCTTATG
+>2
+AGCAGAACTGACTGGTGGATTCTTGGAACCACGAGCAGGATCATATTGATAAATACATGA
+TAGCGATATAAGATGCAACGGTCTCATCAGAGTAAGAGTGCGGAGTTGTACAGCAATGCA
+GGATTGGAGGTCACATTGGAATGGTGACGCATGAGCCGTCAGAAGGGTCGGCCCGGGGGC
+ATCGTGCAACGAGGTCATAGTTGATCCCCACCTATGGGAATTCTGTGGGTTACGCCAATA
+ACTAAGAGCGTGCTTGCCCGTGTTTCAGGATGTCCGGGTCTAGATGACCACTTAATAAGA
+TCCAGTGGATATTCGGCTTCTGTAGCTTCCGTCAGTCAAGGACGCCAAGGTGCAACACCA
+GATGGCCGAGGCTTGAGGAGGCACATGATCCCTCTCCTCTTGAGAGCGCGCATGTTCTTA
+CAGAGAAATAAGTAAAGATGGTCATGAGCCTATATCTCAACTCGACTCTAAGTTACGGTA
+CGTTAGAAAAGGATCCATTCTGGCGTTTAGGCCCTAACAATCGTCTGCTATACGCCAATT
+ACACCGGCGATCCGCTAGTGCCAGAAAGAGTAACTAATTTTGCACATAATAAACGTGTAC
+AACCGAGTGTACCGTGAAACAGTCTTCCGAGGGACTAGCTGACATGTCCTTGAGTACAGC
+TAAACTGGGCGAGTAAGGCATCCCACATGAGACAAACTCCCGAACCACGCTCAGTACAAA
+AATTTGTAGCAGATGAATTGTACTACAGAAAAGGTTGCTGCGACGCGCCGAAATCGCGCT
+AGTCGACGCAGTGCTTTGCTTGCCTGGAGGTGCAGTTACGCACCGGCGCCGATTAGTTAG
+AGGTCTAGCACTATATCTCGTTGATTCCTATACCCGGCACTTCTTAGAGGATTCGTGCCT
+ACCGCCTTTTACCCAACACGAACTGCCACCTTGTAGGTATGCTGTTCCCTTCTTAAAGAG
+TGTTTTGCTAGCGGGTTTGTGGGTGGTATCATGGTTATAG
+>3
+GTTCTCCGCCAGAAGACGGGCGGAAGCGATCGCAAGCCATGCTGCAAACTCCATTGTCAC
+TAGGAACGATCAGGAGCTCCAGGCTCAAATCTCAGCCAATAACGCTGGAAGCCTGGTCAG
+AGGGACAAGTACGGCGGTAACCAAGATTAAAACTTAAAACAGCCCCTGATTTCATACCTG
+CTGAACTATTAGCGTCGGCGCCATGCGGATACTCACTATCTTTACGTTCGATGATACCCA
+CAAAAACATGGCATGCGAATGCTCAGCGAGAAATTCGAAGACCTTCGAATGCTATATAAT
+TAAGCCTACAGCGTGAACGAGTACATAGGTGCGTTTTGCGGATTAGATTTAACCCGTTCC
+GGAATAAAAGGTAACGTTAACAATGCAAGATCAGACCTGCTCACCTACAGCTTTGATAGT
+CATTAGCCTTAGGGGCGATTGGCATCGAGTAGACCCGAGAGATCATAATTTCCTTACAGA
+GCGTAACTGCGGCTGCACATACAGCAACTATTGTAGGAGGATGGATTCATAGAAGCCGAA
+TCAGGTCCGTGGAATACTACAATCTCTATCACTATGTCCTGTACTTATAGGCTACTACGT
+TGCAGCTAGAGGACGCGTGGTACATGACAAGTTACCGTGATTACGGAGTCTTGCGGGGAT
+ACCGCTAGGATATTTTATTAAGACTACTTTCTCCCGTGGGCCATGCGGTTAGTAGCGTCG
+ACAAAGACGCATTTGCAACGCCTGAGGTTATATGCGGTGGAGGATGGACGTGACCTGTGC
+AGGCTAAGAGACCATTTTAACGCGGATACTTAATATTAATCACGAGTCAGGAGCGTGACC
+GTTTCACAGCAATCGTCCATTACTTCGGGTCAACGTCCGCAAAGTGTATCACGGCTGCAT
+TGGCCCCATCGCCGGTATCTTGGGGTATAGATGCTAGTATATGCTCATGCACCTTGCAAT
+ATTCGCCGTTAGAGACACAATAGGTAAAGAGCAATCTAGT
diff --git a/ariba/tests/data/read_store_test_get_reads.expected.reads.fa b/ariba/tests/data/read_store_test_get_reads.expected.reads.fa
new file mode 100644
index 0000000..545ff51
--- /dev/null
+++ b/ariba/tests/data/read_store_test_get_reads.expected.reads.fa
@@ -0,0 +1,12 @@
+>1/1
+AAAA
+>1/2
+CCCC
+>3/1
+GGGG
+>3/2
+TTTT
+>11/1
+ACGT
+>11/2
+TGCA
diff --git a/ariba/tests/data/read_store_test_get_reads.reads_1.fq b/ariba/tests/data/read_store_test_get_reads.expected.reads.fq
similarity index 50%
copy from ariba/tests/data/read_store_test_get_reads.reads_1.fq
copy to ariba/tests/data/read_store_test_get_reads.expected.reads.fq
index 1f6a519..9126be3 100644
--- a/ariba/tests/data/read_store_test_get_reads.reads_1.fq
+++ b/ariba/tests/data/read_store_test_get_reads.expected.reads.fq
@@ -2,11 +2,23 @@
AAAA
+
HIHI
+ at 1/2
+CCCC
++
+GGGG
@3/1
GGGG
+
DEFG
+ at 3/2
+TTTT
++
+GFED
@11/1
ACGT
+
CDEF
+ at 11/2
+TGCA
++
+CDEF
diff --git a/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa b/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa
new file mode 100644
index 0000000..9b4ec2c
--- /dev/null
+++ b/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fa
@@ -0,0 +1,6 @@
+>1/1
+AAAA
+>3/1
+GGGG
+>11/1
+ACGT
diff --git a/ariba/tests/data/read_store_test_get_reads.reads_1.fq b/ariba/tests/data/read_store_test_get_reads.expected.reads_1.fq
similarity index 100%
copy from ariba/tests/data/read_store_test_get_reads.reads_1.fq
copy to ariba/tests/data/read_store_test_get_reads.expected.reads_1.fq
diff --git a/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa b/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa
new file mode 100644
index 0000000..7eac120
--- /dev/null
+++ b/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fa
@@ -0,0 +1,6 @@
+>1/2
+CCCC
+>3/2
+TTTT
+>11/2
+TGCA
diff --git a/ariba/tests/data/read_store_test_get_reads.reads_2.fq b/ariba/tests/data/read_store_test_get_reads.expected.reads_2.fq
similarity index 100%
copy from ariba/tests/data/read_store_test_get_reads.reads_2.fq
copy to ariba/tests/data/read_store_test_get_reads.expected.reads_2.fq
diff --git a/ariba/tests/data/read_store_test_get_reads.reads_1.fq b/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq
similarity index 67%
rename from ariba/tests/data/read_store_test_get_reads.reads_1.fq
rename to ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq
index 1f6a519..bfefc5b 100644
--- a/ariba/tests/data/read_store_test_get_reads.reads_1.fq
+++ b/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.1.fq
@@ -2,10 +2,6 @@
AAAA
+
HIHI
- at 3/1
-GGGG
-+
-DEFG
@11/1
ACGT
+
diff --git a/ariba/tests/data/read_store_test_get_reads.reads_2.fq b/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq
similarity index 67%
rename from ariba/tests/data/read_store_test_get_reads.reads_2.fq
rename to ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq
index 2270fd1..7002f8c 100644
--- a/ariba/tests/data/read_store_test_get_reads.reads_2.fq
+++ b/ariba/tests/data/read_store_test_get_reads.expected.reads_subset.2.fq
@@ -2,10 +2,6 @@
CCCC
+
GGGG
- at 3/2
-TTTT
-+
-GFED
@11/2
TGCA
+
diff --git a/ariba/tests/data/ref_preparer_test_run.in.1.fa b/ariba/tests/data/ref_preparer_test_run.in.1.fa
new file mode 100644
index 0000000..f18247c
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.in.1.fa
@@ -0,0 +1,8 @@
+>gene1
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCTAA
+>gene2
+ATGGATCGTGAAGCGATGACCCATGAAGCGACCGAACGCTAA
+>gene3
+ATGACCGAAAGCAGCGAACGCGCGTGCACCTAA
+>gene4.var_only
+ATGACCGAAAGCAGCGAACGCGCGTGCACCTAA
diff --git a/ariba/tests/data/ref_preparer_test_run.in.1.tsv b/ariba/tests/data/ref_preparer_test_run.in.1.tsv
new file mode 100644
index 0000000..3c170a8
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.in.1.tsv
@@ -0,0 +1,4 @@
+noncoding1 0 0 . . .
+noncoding2.var_only 0 0 C4T . .
+noncoding3.var_only 0 0 C4T . .
+noncoding4.var_only 0 0 C4T . .
diff --git a/ariba/tests/data/ref_preparer_test_run.in.2.fa b/ariba/tests/data/ref_preparer_test_run.in.2.fa
new file mode 100644
index 0000000..173941f
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.in.2.fa
@@ -0,0 +1,8 @@
+>noncoding1
+CTACTGATCATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding2.var_only
+CTACTGATCATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding3.var_only
+CTACTGATTATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding4.var_only
+CAACCACATGCAGTCATGCAACCAACACTCTCATCTAA
diff --git a/ariba/tests/data/ref_preparer_test_run.in.2.tsv b/ariba/tests/data/ref_preparer_test_run.in.2.tsv
new file mode 100644
index 0000000..ef8c8c5
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.in.2.tsv
@@ -0,0 +1,5 @@
+gene1 1 0 . . .
+gene2 1 0 . . .
+gene3 1 0 . . .
+gene4.var_only 1 1 S4T . .
+cannot_make_into_a_gene 1 0 . . .
diff --git a/ariba/tests/data/ref_preparer_test_run.in.3.fa b/ariba/tests/data/ref_preparer_test_run.in.3.fa
new file mode 100644
index 0000000..e6ca362
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.in.3.fa
@@ -0,0 +1,2 @@
+>cannot_make_into_a_gene
+AAAAAAAAAAAAAAAA
diff --git a/ariba/tests/data/ref_preparer_test_run.out/00.info.txt b/ariba/tests/data/ref_preparer_test_run.out/00.info.txt
new file mode 100644
index 0000000..c05ab65
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/00.info.txt
@@ -0,0 +1,6 @@
+input fasta file: /home/ubuntu/git/ariba/ariba/tests/data/ref_preparer_test_run.in.1.fa
+input fasta file: /home/ubuntu/git/ariba/ariba/tests/data/ref_preparer_test_run.in.2.fa
+input fasta file: /home/ubuntu/git/ariba/ariba/tests/data/ref_preparer_test_run.in.3.fa
+input tsv file: /home/ubuntu/git/ariba/ariba/tests/data/ref_preparer_test_run.in.1.tsv
+input tsv file: /home/ubuntu/git/ariba/ariba/tests/data/ref_preparer_test_run.in.2.tsv
+genetic_code 1
diff --git a/ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt b/ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt
new file mode 100644
index 0000000..0373c3d
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/00.version_info.txt
@@ -0,0 +1,5 @@
+ARIBA run with this command:
+python3 -m unittest prepareref ariba.tests.ref_preparer_test
+from this directory: /home/ubuntu/git/ariba
+
+
diff --git a/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log b/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log
new file mode 100644
index 0000000..26666ff
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_genes.log
@@ -0,0 +1,5 @@
+cannot_make_into_a_gene Does not look like a gene (tried both strands and all reading frames) AAAAAAAAAAAAAAAA
+gene1 Made gene1 into gene. strand=+, frame=0
+gene2 Made gene2 into gene. strand=+, frame=0
+gene3 Made gene3 into gene. strand=+, frame=0
+gene4.var_only Made gene4.var_only into gene. strand=+, frame=0
diff --git a/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log b/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log
new file mode 100644
index 0000000..d36e7dd
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.log
@@ -0,0 +1 @@
+cannot_make_into_a_gene was removed because does not look like a gene, so removing its metadata
diff --git a/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv b/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv
new file mode 100644
index 0000000..e62fb35
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/01.filter.check_metadata.tsv
@@ -0,0 +1,8 @@
+gene1 1 0 . . .
+gene2 1 0 . . .
+gene3 1 0 . . .
+gene4.var_only 1 1 S4T . .
+noncoding1 0 0 . . .
+noncoding2.var_only 0 0 C4T . .
+noncoding3.var_only 0 0 C4T . .
+noncoding4.var_only 0 0 C4T . .
diff --git a/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa
new file mode 100644
index 0000000..db6543c
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.all.fa
@@ -0,0 +1,16 @@
+>gene1
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCTAA
+>gene2
+ATGGATCGTGAAGCGATGACCCATGAAGCGACCGAACGCTAA
+>gene3
+ATGACCGAAAGCAGCGAACGCGCGTGCACCTAA
+>gene4.var_only
+ATGACCGAAAGCAGCGAACGCGCGTGCACCTAA
+>noncoding1
+CTACTGATCATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding2.var_only
+CTACTGATCATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding3.var_only
+CTACTGATTATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding4.var_only
+CAACCACATGCAGTCATGCAACCAACACTCTCATCTAA
diff --git a/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle
new file mode 100644
index 0000000..6545b8b
Binary files /dev/null and b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.pickle differ
diff --git a/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv
new file mode 100644
index 0000000..217fd98
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.clusters.tsv
@@ -0,0 +1,5 @@
+cluster_1 gene1 gene2
+cluster_2 gene3
+gene4 gene4.var_only
+noncoding- noncoding1 noncoding2.var_only noncoding3.var_only
+noncoding4 noncoding4.var_only
diff --git a/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa
new file mode 100644
index 0000000..10299e6
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.fa
@@ -0,0 +1,6 @@
+>gene1
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCTAA
+>gene2
+ATGGATCGTGAAGCGATGACCCATGAAGCGACCGAACGCTAA
+>gene3
+ATGACCGAAAGCAGCGAACGCGCGTGCACCTAA
diff --git a/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa
new file mode 100644
index 0000000..159371b
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.gene.varonly.fa
@@ -0,0 +1,2 @@
+>gene4.var_only
+ATGACCGAAAGCAGCGAACGCGCGTGCACCTAA
diff --git a/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa
new file mode 100644
index 0000000..173941f
--- /dev/null
+++ b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.fa
@@ -0,0 +1,8 @@
+>noncoding1
+CTACTGATCATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding2.var_only
+CTACTGATCATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding3.var_only
+CTACTGATTATCTACTATCTGCATCGATGCCTGATCTA
+>noncoding4.var_only
+CAACCACATGCAGTCATGCAACCAACACTCTCATCTAA
diff --git a/ariba/tests/data/reference_data_init_empty.fa b/ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.varonly.fa
similarity index 100%
rename from ariba/tests/data/reference_data_init_empty.fa
rename to ariba/tests/data/ref_preparer_test_run.out/02.cdhit.noncoding.varonly.fa
diff --git a/ariba/tests/data/ref_preparer_test_write_info_file.out b/ariba/tests/data/ref_preparer_test_write_info_file.out
deleted file mode 100644
index 7cc5a6c..0000000
--- a/ariba/tests/data/ref_preparer_test_write_info_file.out
+++ /dev/null
@@ -1,5 +0,0 @@
-input_presabs presabs.fa
-input_varonly None
-input_noncoding None
-input_metadata metadata.tsv
-genetic_code 1
diff --git a/ariba/tests/data/refdata_query_prepareref.in.fa b/ariba/tests/data/refdata_query_prepareref.in.fa
new file mode 100644
index 0000000..7973d42
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref.in.fa
@@ -0,0 +1,82 @@
+>gene1(foo)
+ATGGGCATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+ATGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GAGGTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene2
+ATGGGTATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+AGGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GAGGTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene3
+ATGGGTATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+ATGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene4
+ATGAGTATTCAACATTTCCGTGTCGCCCTTATTCCCTTTTTTGCGGCATTTTGCCTTCCT
+GTTTTTGCTCACCCAGAAACGCTGGTGAAAGTAAAAGATGCTGAAGATAAGTTGGGTGCA
+CGAGTGGGTTACATCGAGCTGGATCTCAACAGCGGTAAGATCCTTGAGAGTTTTCGCCCC
+GAAGAACGTTTTCCAATGATGAGCACTTTTAAAGTTCTGCTATGTGGTGCGGTATTATCC
+CGTGTTGACGCCGGGCAAGAGCAACTCGGTCGCCGCATACACTATTCTCAGAATGACTTG
+GTTAAGTACTCACCAGTCACAGAAAAGCATCTTACGGATGGCATGACAGTAAGAGAATTA
+TGCAGTGCTGCCATAACCATGAGTGATAACACTGCGGCCAACTTACTTCTGACAACGATC
+GGAGGACCGAAGGAGCTAACCGCTTTTTTGCACAACATGGGGGATCATGTAACCCGCCTT
+GATAGTTGGGAACCGGAGCTGAATGAAGCCATACCAAACGACGAGCGTGACACCACGATG
+CCTGCAGCAATGGCAACAACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCT
+TCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCACTTCTGCGC
+TCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCAGTGAGCGTGGATCT
+CGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTAC
+ACGACGGGGAGTCAGGCAACTATGGATGAACGAAATAGACAGATCGCTGAGATAGGTGCC
+TCACTGATTAAGCATTGGTAA
+>gene5.varonly
+ATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACC
+TTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTT
+ACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCG
+CAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTC
+TCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCA
+TCGTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCC
+GCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAG
+GCTTGA
+>gene6.varonly
+ATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACC
+TTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTT
+ACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCG
+CAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTC
+TCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCA
+AGTTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCC
+GCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAG
+GCTTGA
+>noncoding1
+TCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAA
+TACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAA
+CATCTACTGATGTACGAGCAGCTACGTACCGTACGTACGTACGTACTCATATCGTCGTTA
+ACACATACTCTGATCGATCACGTAGTCGTCGTACGTACGTAGTCATATAT
+>noncoding2
+TCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAA
+TACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAA
+CATCTACTGACGTACGAGCAGCTACGTACCGAACGTACGTACGTACTCATATCGTCGTTA
+ACACATACTCTGATCGGTCACGTAGTCGTCGTACGTACGTAGTCATATAT
+>noncoding3
+CTACTGACGTATCATCTGACGTAGTCTCTCATCTACTCATTACCTTCACTCTACTATCAA
+CATCACAGCGACGCACGCGCGCGCGCGAGCCGCGACGACAGCGACGACGCGAAGCCGAAA
+AAAGTCGTCTCCTCACATCAGCAGCGTCAGTACGTACGCAAT
+>noncoding4.varonly
+CTACTGACGTACGTACGTATCTCTCATCATTCACTACTACTACTACTATCATCCTACTTT
+TTTTTTTTTTACCTACTCATCATCATCTCTCTCTCATCAGCACGCGCGCGCGCGCGCGCG
+CGCGCGCATCATCAGTCATCTCTGACGTCAGTCTCTACTCATCGTCATCTAGTATAA
diff --git a/ariba/tests/data/refdata_query_prepareref.in.tsv b/ariba/tests/data/refdata_query_prepareref.in.tsv
new file mode 100644
index 0000000..22714bf
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref.in.tsv
@@ -0,0 +1,13 @@
+gene1(foo) 1 0 . . Generic description of gene1
+gene2 1 0 . . Generic description of gene2
+gene3 1 0 . . Generic description of gene3
+gene4 1 0 . . Generic description of gene4
+gene5.varonly 1 1 . . Generic description of gene5.varonly
+gene5.varonly 1 1 H7I . Generic description of gene5.varonly H7I
+gene5.varonly 1 1 H7J . Generic description of gene5.varonly H7J
+gene6.varonly 1 1 L8A . Generic description of gene6.varonly L8A
+noncoding1 0 0 . . Generic description of noncoding1
+noncoding2 0 0 . . Generic description of noncoding2
+noncoding3 0 0 . . Generic description of noncoding3
+noncoding4.varonly 0 1 . . Generic description of noncoding4.varonly
+noncoding4.varonly 0 1 T5G . Generic description of noncoding4.varonly T5G
diff --git a/ariba/tests/data/refdata_query_prepareref/00.info.txt b/ariba/tests/data/refdata_query_prepareref/00.info.txt
new file mode 100644
index 0000000..3338714
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/00.info.txt
@@ -0,0 +1,3 @@
+input fasta file: refdata_query_prepareref.in.fa
+input tsv file: refdata_query_prepareref.in.tsv
+genetic_code 11
diff --git a/ariba/tests/data/refdata_query_prepareref/00.rename_info b/ariba/tests/data/refdata_query_prepareref/00.rename_info
new file mode 100644
index 0000000..31d0ceb
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/00.rename_info
@@ -0,0 +1 @@
+gene1(foo) gene1_foo_
diff --git a/ariba/tests/data/refdata_query_prepareref/00.version_info.txt b/ariba/tests/data/refdata_query_prepareref/00.version_info.txt
new file mode 100644
index 0000000..6bce8b1
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/00.version_info.txt
@@ -0,0 +1,32 @@
+ARIBA run with this command:
+/home/ubuntu/git/ariba/scripts/ariba_test prepareref -f refdata_query_prepareref.in.fa -m refdata_query_prepareref.in.tsv refdata_query_prepareref
+from this directory: /home/ubuntu/git/ariba/ariba/tests/data
+
+ARIBA version: local
+
+External dependencies:
+bcftools 1.3 /home/ubuntu/bin/bcftools
+bowtie2 2.2.9 /home/ubuntu/bin/bowtie2
+cdhit 4.6 /home/ubuntu/bin/cd-hit-est
+gapfiller v1-11_Final /home/ubuntu/bin/GapFiller_v1-11_linux-x86_64/GapFiller.pl
+nucmer 3.1 /usr/bin/nucmer
+r 3.2.3 /usr/bin/Rscript
+samtools 1.3 /home/ubuntu/bin/samtools
+spades 3.8.2 python2 /home/ubuntu/bin/spades.py
+sspace Basic_v2.0_linux /home/ubuntu/bin/SSPACE-BASIC-2.0_linux-x86_64/SSPACE_Basic_v2.0.pl
+
+External dependencies OK: True
+
+Python version:
+3.5.1+ (default, Mar 30 2016, 22:46:26)
+[GCC 5.3.1 20160330]
+
+Python packages:
+ariba local /home/ubuntu/git/ariba/scripts/ariba/__init__.py
+pyfastaq 3.12.1 /home/ubuntu/.local/lib/python3.5/site-packages/pyfastaq/__init__.py
+pymummer 0.7.1 /home/ubuntu/.local/lib/python3.5/site-packages/pymummer/__init__.py
+pysam 0.9.1 /home/ubuntu/.local/lib/python3.5/site-packages/pysam/__init__.py
+
+Python packages OK: True
+
+Everything looks OK: True
diff --git a/ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log b/ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log
new file mode 100644
index 0000000..391e371
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/01.filter.check_genes.log
@@ -0,0 +1,6 @@
+gene1_foo_ Made gene1_foo_ into gene. strand=+, frame=0
+gene2 Made gene2 into gene. strand=+, frame=0
+gene3 Made gene3 into gene. strand=+, frame=0
+gene4 Made gene4 into gene. strand=+, frame=0
+gene5.varonly Made gene5.varonly into gene. strand=+, frame=0
+gene6.varonly Made gene6.varonly into gene. strand=+, frame=0
diff --git a/ariba/tasks/__init__.py b/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.log
similarity index 100%
copy from ariba/tasks/__init__.py
copy to ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.log
diff --git a/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv b/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv
new file mode 100644
index 0000000..aeb26e5
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/01.filter.check_metadata.tsv
@@ -0,0 +1,13 @@
+gene1_foo_ 1 0 . . Generic description of gene1
+gene2 1 0 . . Generic description of gene2
+gene3 1 0 . . Generic description of gene3
+gene4 1 0 . . Generic description of gene4
+gene5.varonly 1 1 . . Generic description of gene5.varonly
+gene5.varonly 1 1 H7I . Generic description of gene5.varonly H7I
+gene5.varonly 1 1 H7J . Generic description of gene5.varonly H7J
+gene6.varonly 1 1 L8A . Generic description of gene6.varonly L8A
+noncoding1 0 0 . . Generic description of noncoding1
+noncoding2 0 0 . . Generic description of noncoding2
+noncoding3 0 0 . . Generic description of noncoding3
+noncoding4.varonly 0 1 . . Generic description of noncoding4.varonly
+noncoding4.varonly 0 1 T5G . Generic description of noncoding4.varonly T5G
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa b/ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa
new file mode 100644
index 0000000..0702905
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/02.cdhit.all.fa
@@ -0,0 +1,82 @@
+>gene1_foo_
+ATGGGCATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+ATGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GAGGTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene2
+ATGGGTATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+AGGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GAGGTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene3
+ATGGGTATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+ATGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene4
+ATGAGTATTCAACATTTCCGTGTCGCCCTTATTCCCTTTTTTGCGGCATTTTGCCTTCCT
+GTTTTTGCTCACCCAGAAACGCTGGTGAAAGTAAAAGATGCTGAAGATAAGTTGGGTGCA
+CGAGTGGGTTACATCGAGCTGGATCTCAACAGCGGTAAGATCCTTGAGAGTTTTCGCCCC
+GAAGAACGTTTTCCAATGATGAGCACTTTTAAAGTTCTGCTATGTGGTGCGGTATTATCC
+CGTGTTGACGCCGGGCAAGAGCAACTCGGTCGCCGCATACACTATTCTCAGAATGACTTG
+GTTAAGTACTCACCAGTCACAGAAAAGCATCTTACGGATGGCATGACAGTAAGAGAATTA
+TGCAGTGCTGCCATAACCATGAGTGATAACACTGCGGCCAACTTACTTCTGACAACGATC
+GGAGGACCGAAGGAGCTAACCGCTTTTTTGCACAACATGGGGGATCATGTAACCCGCCTT
+GATAGTTGGGAACCGGAGCTGAATGAAGCCATACCAAACGACGAGCGTGACACCACGATG
+CCTGCAGCAATGGCAACAACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCT
+TCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCACTTCTGCGC
+TCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCAGTGAGCGTGGATCT
+CGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTAC
+ACGACGGGGAGTCAGGCAACTATGGATGAACGAAATAGACAGATCGCTGAGATAGGTGCC
+TCACTGATTAAGCATTGGTAA
+>gene5.varonly
+ATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACC
+TTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTT
+ACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCG
+CAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTC
+TCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCA
+TCGTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCC
+GCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAG
+GCTTGA
+>gene6.varonly
+ATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACC
+TTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTT
+ACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCG
+CAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTC
+TCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCA
+AGTTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCC
+GCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAG
+GCTTGA
+>noncoding1
+TCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAA
+TACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAA
+CATCTACTGATGTACGAGCAGCTACGTACCGTACGTACGTACGTACTCATATCGTCGTTA
+ACACATACTCTGATCGATCACGTAGTCGTCGTACGTACGTAGTCATATAT
+>noncoding2
+TCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAA
+TACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAA
+CATCTACTGACGTACGAGCAGCTACGTACCGAACGTACGTACGTACTCATATCGTCGTTA
+ACACATACTCTGATCGGTCACGTAGTCGTCGTACGTACGTAGTCATATAT
+>noncoding3
+CTACTGACGTATCATCTGACGTAGTCTCTCATCTACTCATTACCTTCACTCTACTATCAA
+CATCACAGCGACGCACGCGCGCGCGCGAGCCGCGACGACAGCGACGACGCGAAGCCGAAA
+AAAGTCGTCTCCTCACATCAGCAGCGTCAGTACGTACGCAAT
+>noncoding4.varonly
+CTACTGACGTACGTACGTATCTCTCATCATTCACTACTACTACTACTATCATCCTACTTT
+TTTTTTTTTTACCTACTCATCATCATCTCTCTCTCATCAGCACGCGCGCGCGCGCGCGCG
+CGCGCGCATCATCAGTCATCTCTGACGTCAGTCTCTACTCATCGTCATCTAGTATAA
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle b/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle
new file mode 100644
index 0000000..506afa8
Binary files /dev/null and b/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.pickle differ
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv b/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv
new file mode 100644
index 0000000..9a7a90f
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/02.cdhit.clusters.tsv
@@ -0,0 +1,6 @@
+0 noncoding1 noncoding2
+1 noncoding3
+2 noncoding4.varonly
+3 gene4
+4 gene1_foo_ gene2 gene3
+5 gene5.varonly gene6.varonly
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa b/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa
new file mode 100644
index 0000000..e170e42
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.fa
@@ -0,0 +1,46 @@
+>gene1_foo_
+ATGGGCATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+ATGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GAGGTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene2
+ATGGGTATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+AGGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GAGGTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene3
+ATGGGTATAGAATACCGCAGTCTGCATACCAGCCAATTGACACTGAGTGAAAAAGAAGCG
+CTTTACGATTTATTAATTGAAGGTTTTGAAGGCGATTTTTCGCATGACGATTTCGCGCAC
+ACTTTAGGTGGAATGCACGTCATGGCTTTTGATCAACAAAAATTGGTTGGTCATGTTGCA
+ATTATTCAACGCCATATGGCCCTAGATAATACGCCTATCTCTGTAGGGTATGTTGAAGCG
+ATGGTAGTTGAACAAAGTTATCGTCGCCAAGGTATTGGGCGGCAATTGATGCTGCAAACC
+AATAAAATTATAGCTTCGTGTTATCAATTAGGGCTGCTGTCGGCTTCAGATGATGGACAA
+AAATTGTATCATTCGGTTGGATGGCAAATCTGGAAAGGTAAGTTGTTTGAATTGAAACAA
+GGGAGCTATATCCGTTCTATTGAAGAAGAAGGCGGAGTCATGGGCTGGAAAGCGGATGGT
+GTTGATTTTACCGCTTCGCTTTACTGTGATTTTCGTGGCGGTGATCAGTGGTAA
+>gene4
+ATGAGTATTCAACATTTCCGTGTCGCCCTTATTCCCTTTTTTGCGGCATTTTGCCTTCCT
+GTTTTTGCTCACCCAGAAACGCTGGTGAAAGTAAAAGATGCTGAAGATAAGTTGGGTGCA
+CGAGTGGGTTACATCGAGCTGGATCTCAACAGCGGTAAGATCCTTGAGAGTTTTCGCCCC
+GAAGAACGTTTTCCAATGATGAGCACTTTTAAAGTTCTGCTATGTGGTGCGGTATTATCC
+CGTGTTGACGCCGGGCAAGAGCAACTCGGTCGCCGCATACACTATTCTCAGAATGACTTG
+GTTAAGTACTCACCAGTCACAGAAAAGCATCTTACGGATGGCATGACAGTAAGAGAATTA
+TGCAGTGCTGCCATAACCATGAGTGATAACACTGCGGCCAACTTACTTCTGACAACGATC
+GGAGGACCGAAGGAGCTAACCGCTTTTTTGCACAACATGGGGGATCATGTAACCCGCCTT
+GATAGTTGGGAACCGGAGCTGAATGAAGCCATACCAAACGACGAGCGTGACACCACGATG
+CCTGCAGCAATGGCAACAACGTTGCGCAAACTATTAACTGGCGAACTACTTACTCTAGCT
+TCCCGGCAACAATTAATAGACTGGATGGAGGCGGATAAAGTTGCAGGACCACTTCTGCGC
+TCGGCCCTTCCGGCTGGCTGGTTTATTGCTGATAAATCTGGAGCCAGTGAGCGTGGATCT
+CGCGGTATCATTGCAGCACTGGGGCCAGATGGTAAGCCCTCCCGTATCGTAGTTATCTAC
+ACGACGGGGAGTCAGGCAACTATGGATGAACGAAATAGACAGATCGCTGAGATAGGTGCC
+TCACTGATTAAGCATTGGTAA
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa b/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa
new file mode 100644
index 0000000..20d2bbd
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/02.cdhit.gene.varonly.fa
@@ -0,0 +1,18 @@
+>gene5.varonly
+ATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACC
+TTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTT
+ACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCG
+CAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTC
+TCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCA
+TCGTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCC
+GCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAG
+GCTTGA
+>gene6.varonly
+ATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACC
+TTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTT
+ACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCG
+CAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTC
+TCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCA
+AGTTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCC
+GCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAG
+GCTTGA
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa b/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa
new file mode 100644
index 0000000..0695836
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.fa
@@ -0,0 +1,14 @@
+>noncoding1
+TCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAA
+TACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAA
+CATCTACTGATGTACGAGCAGCTACGTACCGTACGTACGTACGTACTCATATCGTCGTTA
+ACACATACTCTGATCGATCACGTAGTCGTCGTACGTACGTAGTCATATAT
+>noncoding2
+TCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAA
+TACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAA
+CATCTACTGACGTACGAGCAGCTACGTACCGAACGTACGTACGTACTCATATCGTCGTTA
+ACACATACTCTGATCGGTCACGTAGTCGTCGTACGTACGTAGTCATATAT
+>noncoding3
+CTACTGACGTATCATCTGACGTAGTCTCTCATCTACTCATTACCTTCACTCTACTATCAA
+CATCACAGCGACGCACGCGCGCGCGCGAGCCGCGACGACAGCGACGACGCGAAGCCGAAA
+AAAGTCGTCTCCTCACATCAGCAGCGTCAGTACGTACGCAAT
diff --git a/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa b/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa
new file mode 100644
index 0000000..b1e1165
--- /dev/null
+++ b/ariba/tests/data/refdata_query_prepareref/02.cdhit.noncoding.varonly.fa
@@ -0,0 +1,4 @@
+>noncoding4.varonly
+CTACTGACGTACGTACGTATCTCTCATCATTCACTACTACTACTACTATCATCCTACTTT
+TTTTTTTTTTACCTACTCATCATCATCTCTCTCTCATCAGCACGCGCGCGCGCGCGCGCG
+CGCGCGCATCATCAGTCATCTCTGACGTCAGTCTCTACTCATCGTCATCTAGTATAA
diff --git a/ariba/tests/data/reference_data_filter_bad_data_presence_absence.expected.fa b/ariba/tests/data/reference_data_filter_bad_data.expected.all.fa
similarity index 60%
rename from ariba/tests/data/reference_data_filter_bad_data_presence_absence.expected.fa
rename to ariba/tests/data/reference_data_filter_bad_data.expected.all.fa
index 077de1b..e1ac67b 100644
--- a/ariba/tests/data/reference_data_filter_bad_data_presence_absence.expected.fa
+++ b/ariba/tests/data/reference_data_filter_bad_data.expected.all.fa
@@ -1,6 +1,10 @@
+>non_coding_1
+AAAAAAAGAAGGAAAA
>presence_absence_1
ATGTCTTAA
>presence_absence_2
ATGTTTTAA
>presence_absence_3
ATGTTTCGTTAA
+>variants_only_1
+ATGTCCTGTTAG
diff --git a/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log b/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log
new file mode 100644
index 0000000..b3a44ff
--- /dev/null
+++ b/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.log
@@ -0,0 +1,5 @@
+non_coding_1 variant does not match reference. Removing. Line of file was: non_coding_1 0 0 L2K . should be removed because this is non-coding, but variant is protein
+presence_absence_3 variant does not match reference. Removing. Line of file was: presence_absence_3 1 0 I3S . amino acid variant not ok
+variants_only_1 variant does not match reference. Removing. Line of file was: variants_only_1 1 1 I2L . amin acid variant not ok
+variants_only_no_good_variants variant does not match reference. Removing. Line of file was: variants_only_no_good_variants 1 1 A4G . dna variant not ok
+variants_only_no_good_variants No remaining data after checks. Removing this sequence because it is variants only
diff --git a/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv b/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv
new file mode 100644
index 0000000..d0823be
--- /dev/null
+++ b/ariba/tests/data/reference_data_filter_bad_data.expected.check_metadata.tsv
@@ -0,0 +1,10 @@
+non_coding_1 0 0 . . non_coding_1 description1
+non_coding_1 0 0 . . should be in output because this field is here
+non_coding_1 0 0 C5A id1 dna variant ok
+presence_absence_1 1 0 . . .
+presence_absence_1 1 0 . . should be in output because this field is here
+presence_absence_2 1 0 . . should be in output because this field is here
+presence_absence_3 1 0 R3S . amino acid variant ok
+variants_only_1 1 1 . . .
+variants_only_1 1 1 . . should be kept as a generic description of variants_only_1
+variants_only_1 1 1 S2T . amino acid variant ok
diff --git a/ariba/tests/data/reference_data_filter_bad_data.expected.log b/ariba/tests/data/reference_data_filter_bad_data.expected.log
new file mode 100644
index 0000000..b3a44ff
--- /dev/null
+++ b/ariba/tests/data/reference_data_filter_bad_data.expected.log
@@ -0,0 +1,5 @@
+non_coding_1 variant does not match reference. Removing. Line of file was: non_coding_1 0 0 L2K . should be removed because this is non-coding, but variant is protein
+presence_absence_3 variant does not match reference. Removing. Line of file was: presence_absence_3 1 0 I3S . amino acid variant not ok
+variants_only_1 variant does not match reference. Removing. Line of file was: variants_only_1 1 1 I2L . amin acid variant not ok
+variants_only_no_good_variants variant does not match reference. Removing. Line of file was: variants_only_no_good_variants 1 1 A4G . dna variant not ok
+variants_only_no_good_variants No remaining data after checks. Removing this sequence because it is variants only
diff --git a/ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv b/ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv
new file mode 100644
index 0000000..d0823be
--- /dev/null
+++ b/ariba/tests/data/reference_data_filter_bad_data.expected.metadata.tsv
@@ -0,0 +1,10 @@
+non_coding_1 0 0 . . non_coding_1 description1
+non_coding_1 0 0 . . should be in output because this field is here
+non_coding_1 0 0 C5A id1 dna variant ok
+presence_absence_1 1 0 . . .
+presence_absence_1 1 0 . . should be in output because this field is here
+presence_absence_2 1 0 . . should be in output because this field is here
+presence_absence_3 1 0 R3S . amino acid variant ok
+variants_only_1 1 1 . . .
+variants_only_1 1 1 . . should be kept as a generic description of variants_only_1
+variants_only_1 1 1 S2T . amino acid variant ok
diff --git a/ariba/tests/data/reference_data_filter_bad_data.in.fa b/ariba/tests/data/reference_data_filter_bad_data.in.fa
new file mode 100644
index 0000000..fd35235
--- /dev/null
+++ b/ariba/tests/data/reference_data_filter_bad_data.in.fa
@@ -0,0 +1,12 @@
+>presence_absence_1
+ATGTCTTAA
+>presence_absence_2
+ATGTTTTAA
+>presence_absence_3
+ATGTTTCGTTAA
+>variants_only_1
+ATGTCCTGTTAG
+>variants_only_no_good_variants
+ATGTTTTAG
+>non_coding_1
+AAAAAAAGAAGGAAAA
diff --git a/ariba/tests/data/reference_data_filter_bad_data_metadata.expected.tsv b/ariba/tests/data/reference_data_filter_bad_data_metadata.expected.tsv
deleted file mode 100644
index 4f90cbf..0000000
--- a/ariba/tests/data/reference_data_filter_bad_data_metadata.expected.tsv
+++ /dev/null
@@ -1,9 +0,0 @@
-non_coding_1 . . . non_coding_1 description1
-non_coding_1 . . . should be in output because this field is here
-non_coding_1 n C5A id1 dna variant ok
-presence_absence_1 . . . should be in output because this field is here
-presence_absence_2 n T4G id2 dna variant ok
-presence_absence_3 p R3S . amino acid variant ok
-variants_only_1 . . . should be kept as a generic description of variants_only_1
-variants_only_1 p S2T . amino acid variant ok
-variants_only_1 n T4A . dna variant ok
diff --git a/ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv b/ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv
index 031a8d7..e9f5c58 100644
--- a/ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv
+++ b/ariba/tests/data/reference_data_filter_bad_data_metadata.in.tsv
@@ -1,20 +1,17 @@
-non_coding_1 . . . non_coding_1 description1
-non_coding_1 . . . should be in output because this field is here
-non_coding_1 p L2K . should be removed because this is non-coding, but variant is protein
-non_coding_1 n C5A id1 dna variant ok
-non_coding_not_in_fasta . . . should be removed from tsv because not in fasta
-presence_absence_1 . . . .
-presence_absence_1 . . . should be in output because this field is here
-presence_absence_2 n T4G id2 dna variant ok
-presence_absence_2 n A4G . dna variant not ok
-presence_absence_3 p R3S . amino acid variant ok
-presence_absence_3 p I3S . amino acid variant not ok
-presence_absence_not_in_fasta . . . should be removed from tsv because not in fasta
-variants_only_1 n T4A . dna variant ok
-variants_only_1 n C4G . dna variant not ok
-variants_only_1 p S2T . amino acid variant ok
-variants_only_1 p I2L . amin acid variant not ok
-variants_only_1 . . . should be kept as a generic description of variants_only_1
-variants_only_1 . . . .
-variants_only_not_in_fasta . . . should be removed from tsv because not in fasta
-variants_only_no_good_variants n A4G . dna variant not ok
+non_coding_1 0 0 . . non_coding_1 description1
+non_coding_1 0 0 . . should be in output because this field is here
+non_coding_1 0 0 L2K . should be removed because this is non-coding, but variant is protein
+non_coding_1 0 0 C5A id1 dna variant ok
+non_coding_not_in_fasta 0 0 . . should be removed from tsv because not in fasta
+presence_absence_1 1 0 . . .
+presence_absence_1 1 0 . . should be in output because this field is here
+presence_absence_2 1 0 . . should be in output because this field is here
+presence_absence_3 1 0 R3S . amino acid variant ok
+presence_absence_3 1 0 I3S . amino acid variant not ok
+presence_absence_not_in_fasta 1 0 . . should be removed from tsv because not in fasta
+variants_only_1 1 1 S2T . amino acid variant ok
+variants_only_1 1 1 I2L . amin acid variant not ok
+variants_only_1 1 1 . . should be kept as a generic description of variants_only_1
+variants_only_1 1 1 . . .
+variants_only_not_in_fasta 1 1 . . should be removed from tsv because not in fasta
+variants_only_no_good_variants 1 1 A4G . dna variant not ok
diff --git a/ariba/tests/data/reference_data_filter_bad_data_non_coding.expected.fa b/ariba/tests/data/reference_data_filter_bad_data_non_coding.expected.fa
deleted file mode 100644
index 000b42f..0000000
--- a/ariba/tests/data/reference_data_filter_bad_data_non_coding.expected.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->non_coding_1
-AAAAAAAGAAGGAAAA
diff --git a/ariba/tests/data/reference_data_filter_bad_data_variants_only.expected.fa b/ariba/tests/data/reference_data_filter_bad_data_variants_only.expected.fa
deleted file mode 100644
index 974509c..0000000
--- a/ariba/tests/data/reference_data_filter_bad_data_variants_only.expected.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->variants_only_1
-ATGTCCTGTTAG
diff --git a/ariba/tests/data/reference_data_get_filename b/ariba/tests/data/reference_data_get_filename
deleted file mode 100644
index ce01362..0000000
--- a/ariba/tests/data/reference_data_get_filename
+++ /dev/null
@@ -1 +0,0 @@
-hello
diff --git a/ariba/tests/data/reference_data_init.tsv b/ariba/tests/data/reference_data_init.tsv
deleted file mode 100644
index 1e8f1a6..0000000
--- a/ariba/tests/data/reference_data_init.tsv
+++ /dev/null
@@ -1,4 +0,0 @@
-gene1 n A42G . free text
-gene1 n A42T . free text2
-gene1 n G13T . confers killer rabbit resistance
-gene2 p I42L . removes tardigrade's space-living capability
diff --git a/ariba/tasks/__init__.py b/ariba/tests/data/reference_data_init_fails.empty.fa
similarity index 100%
copy from ariba/tasks/__init__.py
copy to ariba/tests/data/reference_data_init_fails.empty.fa
diff --git a/ariba/tasks/__init__.py b/ariba/tests/data/reference_data_init_fails.empty.tsv
similarity index 100%
copy from ariba/tasks/__init__.py
copy to ariba/tests/data/reference_data_init_fails.empty.tsv
diff --git a/ariba/tests/data/reference_data_init_fails.in.fa b/ariba/tests/data/reference_data_init_fails.in.fa
new file mode 100644
index 0000000..91c22b1
--- /dev/null
+++ b/ariba/tests/data/reference_data_init_fails.in.fa
@@ -0,0 +1,4 @@
+>seq1
+CATCTACTCATG
+>seq2
+ATCATCGTGCATGCATG
diff --git a/ariba/tests/data/reference_data_init_presence_absence.fa b/ariba/tests/data/reference_data_init_ok.in.fa
similarity index 56%
rename from ariba/tests/data/reference_data_init_presence_absence.fa
rename to ariba/tests/data/reference_data_init_ok.in.fa
index 3f4671c..a98493e 100644
--- a/ariba/tests/data/reference_data_init_presence_absence.fa
+++ b/ariba/tests/data/reference_data_init_ok.in.fa
@@ -1,4 +1,4 @@
>gene1
-CATTCCTAGCGTCGTCTATCGTCG
+CATCGTCGTCTATCGTCGTCCTAG
>gene2
AAAAACCCCGGGGTTTT
diff --git a/ariba/tests/data/reference_data_init_ok.in.tsv b/ariba/tests/data/reference_data_init_ok.in.tsv
new file mode 100644
index 0000000..d1faeb7
--- /dev/null
+++ b/ariba/tests/data/reference_data_init_ok.in.tsv
@@ -0,0 +1,2 @@
+gene1 1 0 R2S . confers killer rabbit resistance
+gene2 1 0 I42L . removes tardigrade's space-living capability
diff --git a/ariba/tests/data/reference_data_write_dict_of_sequences.fa b/ariba/tests/data/reference_data_load_all_fasta_files.in.1
similarity index 50%
copy from ariba/tests/data/reference_data_write_dict_of_sequences.fa
copy to ariba/tests/data/reference_data_load_all_fasta_files.in.1
index 3becfa8..6b27dae 100644
--- a/ariba/tests/data/reference_data_write_dict_of_sequences.fa
+++ b/ariba/tests/data/reference_data_load_all_fasta_files.in.1
@@ -1,4 +1,2 @@
>seq1
ACGT
->seq2
-GGGG
diff --git a/ariba/tests/data/reference_data_load_all_fasta_files.in.2 b/ariba/tests/data/reference_data_load_all_fasta_files.in.2
new file mode 100644
index 0000000..44a7159
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_all_fasta_files.in.2
@@ -0,0 +1,2 @@
+>seq2
+TTTT
diff --git a/ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv b/ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv
new file mode 100644
index 0000000..0697e40
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_all_metadata_tsvs.1.tsv
@@ -0,0 +1 @@
+gene1 0 0 G13T . confers killer rabbit resistance
diff --git a/ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv b/ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv
new file mode 100644
index 0000000..b063753
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_all_metadata_tsvs.2.tsv
@@ -0,0 +1,2 @@
+gene1 0 0 A42G . free text
+gene2 1 0 I42L . removes tardigrade's space-living capability
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.csv.1 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.csv.1
new file mode 100644
index 0000000..dc32815
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.csv.1
@@ -0,0 +1 @@
+seq1 0 0 A1G . free text
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.csv.2 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.csv.2
new file mode 100644
index 0000000..95d6a26
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.csv.2
@@ -0,0 +1,2 @@
+seq2 0 0 . . spam eggs
+seq3 0 0 . . should get removed
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.fa.1 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.fa.1
new file mode 100644
index 0000000..ca3630c
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.fa.1
@@ -0,0 +1,4 @@
+>seq1
+ACGT
+>seqX
+AAAAAA
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.fa.2 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.fa.2
new file mode 100644
index 0000000..44a7159
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.bad.in.fa.2
@@ -0,0 +1,2 @@
+>seq2
+TTTT
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.csv.1 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.csv.1
new file mode 100644
index 0000000..dc32815
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.csv.1
@@ -0,0 +1 @@
+seq1 0 0 A1G . free text
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.csv.2 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.csv.2
new file mode 100644
index 0000000..95d6a26
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.csv.2
@@ -0,0 +1,2 @@
+seq2 0 0 . . spam eggs
+seq3 0 0 . . should get removed
diff --git a/ariba/tests/data/reference_data_write_dict_of_sequences.fa b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.fa.1
similarity index 50%
rename from ariba/tests/data/reference_data_write_dict_of_sequences.fa
rename to ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.fa.1
index 3becfa8..6b27dae 100644
--- a/ariba/tests/data/reference_data_write_dict_of_sequences.fa
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.fa.1
@@ -1,4 +1,2 @@
>seq1
ACGT
->seq2
-GGGG
diff --git a/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.fa.2 b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.fa.2
new file mode 100644
index 0000000..44a7159
--- /dev/null
+++ b/ariba/tests/data/reference_data_load_input_files_and_check_seq_names.good.in.fa.2
@@ -0,0 +1,2 @@
+>seq2
+TTTT
diff --git a/ariba/tests/data/reference_data_load_metadata_tsv.tsv b/ariba/tests/data/reference_data_load_metadata_tsv.tsv
index 3551863..2fb0be4 100644
--- a/ariba/tests/data/reference_data_load_metadata_tsv.tsv
+++ b/ariba/tests/data/reference_data_load_metadata_tsv.tsv
@@ -1,3 +1,3 @@
-gene1 n A42G . free text
-gene1 n G13T . confers killer rabbit resistance
-gene2 p I42L . removes tardigrade's space-living capability
+gene1 0 0 A42G . free text
+gene1 0 0 G13T . confers killer rabbit resistance
+gene2 1 1 I42L . removes tardigrade's space-living capability
diff --git a/ariba/tests/data/reference_data_make_catted_fasta.expected.fa b/ariba/tests/data/reference_data_make_catted_fasta.expected.fa
deleted file mode 100644
index b2dd9a3..0000000
--- a/ariba/tests/data/reference_data_make_catted_fasta.expected.fa
+++ /dev/null
@@ -1,6 +0,0 @@
->pa1
-ATGTTTTAA
->vonly1
-ATGTTTTAA
->nc1
-CACCATACTGCATCT
diff --git a/ariba/tests/data/reference_data_make_catted_fasta.noncoding.fa b/ariba/tests/data/reference_data_make_catted_fasta.noncoding.fa
deleted file mode 100644
index 2fee033..0000000
--- a/ariba/tests/data/reference_data_make_catted_fasta.noncoding.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->nc1
-CACCATACTGCATCT
diff --git a/ariba/tests/data/reference_data_make_catted_fasta.presence_absence.fa b/ariba/tests/data/reference_data_make_catted_fasta.presence_absence.fa
deleted file mode 100644
index 9caa1f6..0000000
--- a/ariba/tests/data/reference_data_make_catted_fasta.presence_absence.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->pa1
-ATGTTTTAA
diff --git a/ariba/tests/data/reference_data_make_catted_fasta.variants_only.fa b/ariba/tests/data/reference_data_make_catted_fasta.variants_only.fa
deleted file mode 100644
index 1b0ae3c..0000000
--- a/ariba/tests/data/reference_data_make_catted_fasta.variants_only.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->vonly1
-ATGTTTTAA
diff --git a/ariba/tests/data/reference_data_remove_bad_genes.in.fa b/ariba/tests/data/reference_data_remove_bad_genes.in.fa
index c6b2868..88d42d3 100644
--- a/ariba/tests/data/reference_data_remove_bad_genes.in.fa
+++ b/ariba/tests/data/reference_data_remove_bad_genes.in.fa
@@ -8,3 +8,5 @@ GAGGAGCCG
ATGTAACCT
>g5
ATGCCTTAA
+>noncoding1
+AAAAAAAAAAAAAAAAAAAAAAA
diff --git a/ariba/tests/data/reference_data_remove_bad_genes.in.tsv b/ariba/tests/data/reference_data_remove_bad_genes.in.tsv
new file mode 100644
index 0000000..c1e5972
--- /dev/null
+++ b/ariba/tests/data/reference_data_remove_bad_genes.in.tsv
@@ -0,0 +1,6 @@
+g1 1 0 . . .
+g2 1 0 . . .
+g3 1 0 . . .
+g4 1 0 . . .
+g5 1 0 . . .
+noncoding1 0 0 . . .
diff --git a/ariba/tests/data/reference_data_rename_sequences.fa b/ariba/tests/data/reference_data_rename_sequences.fa
new file mode 100644
index 0000000..e45e17b
--- /dev/null
+++ b/ariba/tests/data/reference_data_rename_sequences.fa
@@ -0,0 +1,22 @@
+>pres_abs1 foo bar spam eggs
+ACGT
+>pres_abs1 blah
+AAAA
+>pres'abs1
+CCCC
+>pres_abs2
+TTTT
+>pres!abs3
+GGGG
+>var_only1 hello
+AAAA
+>var:only1 boo
+CCCC
+>var_only1
+GGGG
+>var_only2
+TTTT
+>noncoding1
+AAAA
+>noncoding1 blah
+CCCC
diff --git a/ariba/tests/data/reference_data_rename_sequences.noncoding.fa b/ariba/tests/data/reference_data_rename_sequences.noncoding.fa
deleted file mode 100644
index a8b5192..0000000
--- a/ariba/tests/data/reference_data_rename_sequences.noncoding.fa
+++ /dev/null
@@ -1,4 +0,0 @@
->noncoding1
-AAAA
->noncoding1 blah
-CCCC
diff --git a/ariba/tests/data/reference_data_rename_sequences.presence_absence.fa b/ariba/tests/data/reference_data_rename_sequences.presence_absence.fa
deleted file mode 100644
index d9a7ab5..0000000
--- a/ariba/tests/data/reference_data_rename_sequences.presence_absence.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->pres_abs1 foo bar spam eggs
-ACGT
->pres_abs1 blah
-AAAA
->pres'abs1
-CCCC
->pres_abs2
-TTTT
->pres!abs3
-GGGG
diff --git a/ariba/tests/data/reference_data_rename_sequences.variants_only.fa b/ariba/tests/data/reference_data_rename_sequences.variants_only.fa
deleted file mode 100644
index 87d7377..0000000
--- a/ariba/tests/data/reference_data_rename_sequences.variants_only.fa
+++ /dev/null
@@ -1,8 +0,0 @@
->var_only1 hello
-AAAA
->var:only1 boo
-CCCC
->var_only1
-GGGG
->var_only2
-TTTT
diff --git a/ariba/tests/data/reference_data_rename_sequences_metadata.tsv b/ariba/tests/data/reference_data_rename_sequences_metadata.tsv
index 6d43433..462c736 100644
--- a/ariba/tests/data/reference_data_rename_sequences_metadata.tsv
+++ b/ariba/tests/data/reference_data_rename_sequences_metadata.tsv
@@ -1,11 +1,11 @@
-noncoding1 . . . original name "noncoding1"
-noncoding1 blah . . . original name "noncoding1 blah"
-pres_abs1 foo bar spam eggs . . . original name "pres_abs1 foo bar spam eggs"
-pres_abs1 blah . . . original name "pres_abs1 blah"
-pres'abs1 . . . original name "pres'abs1"
-pres_abs2 . . . original name "pres_abs2"
-pres!abs3 . . . original name "pres!abs3"
-var_only1 hello . . . original name "var_only1 hello"
-var:only1 boo . . . original name "var:only1 boo"
-var_only1 . . . original name "var_only1"
-var_only2 . . . original name "var_only2"
+noncoding1 0 0 . . original name "noncoding1"
+noncoding1 blah 0 0 . . original name "noncoding1 blah"
+pres_abs1 foo bar spam eggs 0 0 . . original name "pres_abs1 foo bar spam eggs"
+pres_abs1 blah 0 0 . . original name "pres_abs1 blah"
+pres'abs1 0 0 . . original name "pres'abs1"
+pres_abs2 0 0 . . original name "pres_abs2"
+pres!abs3 0 0 . . original name "pres!abs3"
+var_only1 hello 0 0 . . original name "var_only1 hello"
+var:only1 boo 0 0 . . original name "var:only1 boo"
+var_only1 0 0 . . original name "var_only1"
+var_only2 0 0 . . original name "var_only2"
diff --git a/ariba/tests/data/reference_data_sequence.in.fa b/ariba/tests/data/reference_data_sequence.in.fa
new file mode 100644
index 0000000..6d97f08
--- /dev/null
+++ b/ariba/tests/data/reference_data_sequence.in.fa
@@ -0,0 +1,4 @@
+>seq1
+ATGTTTTAA
+>seq2
+AAAAA
diff --git a/ariba/tests/data/reference_data_sequence.in.tsv b/ariba/tests/data/reference_data_sequence.in.tsv
new file mode 100644
index 0000000..2a73273
--- /dev/null
+++ b/ariba/tests/data/reference_data_sequence.in.tsv
@@ -0,0 +1,2 @@
+seq1 1 0 . . foo
+seq2 1 0 . . bar
diff --git a/ariba/tests/data/reference_data_sequence.presence_absence.fa b/ariba/tests/data/reference_data_sequence.presence_absence.fa
deleted file mode 100644
index 3ea7b0a..0000000
--- a/ariba/tests/data/reference_data_sequence.presence_absence.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->pa
-ATGTTTTAA
diff --git a/ariba/tests/data/reference_data_sequence_length.presence_absence.fa b/ariba/tests/data/reference_data_sequence_length.presence_absence.fa
deleted file mode 100644
index 3ea7b0a..0000000
--- a/ariba/tests/data/reference_data_sequence_length.presence_absence.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->pa
-ATGTTTTAA
diff --git a/ariba/tests/data/reference_data_sequence_type.in.fa b/ariba/tests/data/reference_data_sequence_type.in.fa
new file mode 100644
index 0000000..dd86a48
--- /dev/null
+++ b/ariba/tests/data/reference_data_sequence_type.in.fa
@@ -0,0 +1,8 @@
+>gene
+ACGT
+>gene.var_only
+ACGT
+>noncoding
+ACGT
+>noncoding.var_only
+ACGT
diff --git a/ariba/tests/data/reference_data_sequence_type.in.tsv b/ariba/tests/data/reference_data_sequence_type.in.tsv
new file mode 100644
index 0000000..c02493b
--- /dev/null
+++ b/ariba/tests/data/reference_data_sequence_type.in.tsv
@@ -0,0 +1,4 @@
+gene 1 0 . . .
+gene.var_only 1 1 . . .
+noncoding 0 0 . . .
+noncoding.var_only 0 1 . . .
diff --git a/ariba/tests/data/reference_data_sequence_type.noncoding.fa b/ariba/tests/data/reference_data_sequence_type.noncoding.fa
deleted file mode 100644
index 92270e6..0000000
--- a/ariba/tests/data/reference_data_sequence_type.noncoding.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->noncoding
-AAAAAA
diff --git a/ariba/tests/data/reference_data_sequence_type.presence_absence.fa b/ariba/tests/data/reference_data_sequence_type.presence_absence.fa
deleted file mode 100644
index 3ea7b0a..0000000
--- a/ariba/tests/data/reference_data_sequence_type.presence_absence.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->pa
-ATGTTTTAA
diff --git a/ariba/tests/data/reference_data_sequence_type.variants_only.fa b/ariba/tests/data/reference_data_sequence_type.variants_only.fa
deleted file mode 100644
index acf4730..0000000
--- a/ariba/tests/data/reference_data_sequence_type.variants_only.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->var_only
-ATGTTTTAA
diff --git a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa
new file mode 100644
index 0000000..68f1685
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.fa
@@ -0,0 +1,6 @@
+>presence_absence_gene
+ATGAACCCCGGGGTTTTTTAA
+>var_only_gene
+ATGAACCCCGGGGTTTTTTAA
+>non_coding
+AAGTCATGCATCTA
diff --git a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.noncoding.fa b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.noncoding.fa
deleted file mode 100644
index 601a75d..0000000
--- a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.noncoding.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->non_coding
-AAGTCATGCATCTA
diff --git a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.pres_abs.fa b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.pres_abs.fa
deleted file mode 100644
index 09fa61e..0000000
--- a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.pres_abs.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->presence_absence_gene
-ATGAACCCCGGGGTTTTTTAA
diff --git a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.var_only.fa b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.var_only.fa
deleted file mode 100644
index 65d15d3..0000000
--- a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.ref.var_only.fa
+++ /dev/null
@@ -1,2 +0,0 @@
->var_only_gene
-ATGAACCCCGGGGTTTTTTAA
diff --git a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv
index 6f1defa..b378103 100644
--- a/ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv
+++ b/ariba/tests/data/reference_data_test_all_non_wild_type_variants.tsv
@@ -1,12 +1,8 @@
-var_only_gene n A8T . ref has wild type A
-var_only_gene n G9C . ref has variant C instead of G
-var_only_gene p G4I . ref has wild type F
-var_only_gene p F6I . ref has wild type F
-var_only_gene p P3Q . ref has wild type P
-var_only_gene p I5V . ref has variant V instead of I
-presence_absence_gene n A4G . ref has wild type A
-presence_absence_gene n A6C . ref has variant C instead of A
-presence_absence_gene p N2I . ref has wild type N
-presence_absence_gene p A4G . ref has variant G instead of A
-non_coding n A2C . ref has wild type A
-non_coding n C4T . ref has variant T instead of C
+var_only_gene 1 1 G4I . ref has wild type F
+var_only_gene 1 1 F6I . ref has wild type F
+var_only_gene 1 1 P3Q . ref has wild type P
+var_only_gene 1 1 I5V . ref has variant V instead of I
+presence_absence_gene 1 0 N2I . ref has wild type N
+presence_absence_gene 1 0 A4G . ref has variant G instead of A
+non_coding 0 0 A2C . ref has wild type A
+non_coding 0 0 C4T . ref has variant T instead of C
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit.clusters.tsv
deleted file mode 100644
index 902d2fa..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit.clusters.tsv
+++ /dev/null
@@ -1,3 +0,0 @@
-presence_absence1.p presence_absence1 presence_absence2
-presence_absence3.p presence_absence3 presence_absence4
-noncoding1.n noncoding1
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv
new file mode 100644
index 0000000..e8ef7a0
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected.clusters.tsv
@@ -0,0 +1,3 @@
+0 noncoding1
+1 presence_absence1 presence_absence2
+2 presence_absence3 presence_absence4
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected_representatives.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected_representatives.fa
deleted file mode 100644
index 4497fcb..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit.expected_representatives.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->presence_absence1.p
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence3.p
-ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
->noncoding1.n
-GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
-AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
-GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
-ATGCTGGGAAGGGTTTGCTG
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.presence_absence.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa
similarity index 64%
rename from ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.presence_absence.fa
rename to ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa
index 4541dff..f803e27 100644
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.presence_absence.fa
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.fa
@@ -1,3 +1,8 @@
+>noncoding1
+GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
+AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
+GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
+ATGCTGGGAAGGGTTTGCTG
>presence_absence1
ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv
new file mode 100644
index 0000000..1631b9f
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit.in.tsv
@@ -0,0 +1,5 @@
+noncoding1 0 0 . . .
+presence_absence1 1 0 . . .
+presence_absence2 1 0 . . .
+presence_absence3 1 0 . . .
+presence_absence4 1 0 . . .
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit.non_coding.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit.non_coding.fa
deleted file mode 100644
index 3008b6e..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit.non_coding.fa
+++ /dev/null
@@ -1,5 +0,0 @@
->noncoding1
-GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
-AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
-GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
-ATGCTGGGAAGGGTTTGCTG
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit.presence_absence.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit.presence_absence.fa
deleted file mode 100644
index 4541dff..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit.presence_absence.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->presence_absence1
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence2
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAAATGGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence3
-ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
->presence_absence4
-ATGGCGTGCGATGAATTTGGCATGATTAAACTGATGAACCCGCAGCGCAGCACCTAA
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.clusters b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.clusters
deleted file mode 100644
index 20ea4d0..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.clusters
+++ /dev/null
@@ -1,4 +0,0 @@
-noncoding1
-noncoding2
-presence_absence1 presence_absence3 presence_absence4
-presence_absence2
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.clusters.tsv
deleted file mode 100644
index a549633..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.clusters.tsv
+++ /dev/null
@@ -1,4 +0,0 @@
-presence_absence1.p presence_absence1 presence_absence3 presence_absence4
-presence_absence2.p presence_absence2
-noncoding1.n noncoding1
-noncoding2.n noncoding2
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.expected.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.expected.clusters.tsv
new file mode 100644
index 0000000..73b1bf3
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.expected.clusters.tsv
@@ -0,0 +1,4 @@
+0 presence_absence1 presence_absence3 presence_absence4
+1 presence_absence2
+2 noncoding1
+3 noncoding2
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.clusters.tsv
new file mode 100644
index 0000000..60b9ae3
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.clusters.tsv
@@ -0,0 +1,4 @@
+presence_absence1 presence_absence3 presence_absence4
+presence_absence2
+noncoding1
+noncoding2
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.expected_representatives.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.fa
similarity index 86%
rename from ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.expected_representatives.fa
rename to ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.fa
index afc9b89..9c4b9a0 100644
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.expected_representatives.fa
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.fa
@@ -1,20 +1,20 @@
->noncoding1.n
+>noncoding1
GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
ATGCTGGGAAGGGTTTGCTG
->noncoding2.n
+>noncoding2
GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
ATGCTGGGAAGGGTTTGCTG
->presence_absence1.p
+>presence_absence1
ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence2.p
+>presence_absence2
ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAAATGGCGAGCACCAACATTAGCCAT
ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence3.p
+>presence_absence3
ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
->presence_absence4.p
+>presence_absence4
ATGGCGTGCGATGAATTTGGCATGATTAAACTGATGAACCCGCAGCGCAGCACCTAA
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.meta.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.meta.tsv
new file mode 100644
index 0000000..2ca6ce7
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.in.meta.tsv
@@ -0,0 +1,6 @@
+noncoding1 0 0 . . .
+noncoding2 0 0 . . .
+presence_absence1 1 0 . . .
+presence_absence2 1 0 . . .
+presence_absence3 1 0 . . .
+presence_absence4 1 0 . . .
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.non_coding.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.non_coding.fa
deleted file mode 100644
index 9d54da5..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.non_coding.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->noncoding1
-GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
-AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
-GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
-ATGCTGGGAAGGGTTTGCTG
->noncoding2
-GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
-AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
-GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
-ATGCTGGGAAGGGTTTGCTG
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.clusters.tsv
deleted file mode 100644
index f61ea8f..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.clusters.tsv
+++ /dev/null
@@ -1,6 +0,0 @@
-presence_absence1.p presence_absence1
-presence_absence2.p presence_absence2
-presence_absence3.p presence_absence3
-presence_absence4.p presence_absence4
-noncoding1.n noncoding1
-noncoding2.n noncoding2
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.expected.clusters.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.expected.clusters.tsv
new file mode 100644
index 0000000..0e15ac3
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.expected.clusters.tsv
@@ -0,0 +1,6 @@
+0 noncoding1
+1 noncoding2
+2 presence_absence1
+3 presence_absence2
+4 presence_absence3
+5 presence_absence4
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.expected_representatives.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.in.fa
similarity index 73%
rename from ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.expected_representatives.fa
rename to ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.in.fa
index d287c87..9c4b9a0 100644
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_clusters_in_file.expected_representatives.fa
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.in.fa
@@ -1,16 +1,20 @@
->presence_absence1.p
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence2.p
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAAATGGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->noncoding1.n
+>noncoding1
GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
ATGCTGGGAAGGGTTTGCTG
->noncoding2.n
+>noncoding2
GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
ATGCTGGGAAGGGTTTGCTG
+>presence_absence1
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
+ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
+>presence_absence2
+ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAAATGGCGAGCACCAACATTAGCCAT
+ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
+>presence_absence3
+ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
+>presence_absence4
+ATGGCGTGCGATGAATTTGGCATGATTAAACTGATGAACCCGCAGCGCAGCACCTAA
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.in.tsv b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.in.tsv
new file mode 100644
index 0000000..2ca6ce7
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.in.tsv
@@ -0,0 +1,6 @@
+noncoding1 0 0 . . .
+noncoding2 0 0 . . .
+presence_absence1 1 0 . . .
+presence_absence2 1 0 . . .
+presence_absence3 1 0 . . .
+presence_absence4 1 0 . . .
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.non_coding.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.non_coding.fa
deleted file mode 100644
index 9d54da5..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.non_coding.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->noncoding1
-GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
-AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
-GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
-ATGCTGGGAAGGGTTTGCTG
->noncoding2
-GTACATTACTGGCGACCCAAGGAAGGGAAATCTGTTAAACATGATCTCGGTAGTCTATAG
-AACAGATTTAACATTACCTGGTGTTTGCTCCTTGCATCATCCTCTGACTATTCTAGACCA
-GGGAGGACTTTGGTCACGCGCGACCTTGCACTGTGGCGACGCCATAGAACCGTCTACCTG
-ATGCTGGGAAGGGTTTGCTG
diff --git a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.presence_absence.fa b/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.presence_absence.fa
deleted file mode 100644
index 4541dff..0000000
--- a/ariba/tests/data/reference_data_test_cluster_with_cdhit_nocluster.presence_absence.fa
+++ /dev/null
@@ -1,10 +0,0 @@
->presence_absence1
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAACGCGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence2
-ATGGATCGCGAAGCGATGACCCATGAAGCGACCGAAATGGCGAGCACCAACATTAGCCAT
-ATTAACGGCATTAGCGCGTGGGAAAGCATGGAATAA
->presence_absence3
-ATGGCGTGCGATGAATTTGGCCATATTAAACTGATGAACCCGCAGCGCAGCACCTAA
->presence_absence4
-ATGGCGTGCGATGAATTTGGCATGATTAAACTGATGAACCCGCAGCGCAGCACCTAA
diff --git a/ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected b/ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected
index ae974b0..0d07d9f 100644
--- a/ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected
+++ b/ariba/tests/data/reference_data_test_write_cluster_allocation_file.expected
@@ -1,4 +1,4 @@
-seq1 seq2
-seq3 seq4 seq5
-seq6
-seq10 seq42
+0 cluster0.1 cluster0.2
+1 cluster1.1 cluster1.2
+11 cluster11.1 cluster11.2
+2 cluster2.1
diff --git a/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv b/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv
new file mode 100644
index 0000000..4c6fe76
--- /dev/null
+++ b/ariba/tests/data/reference_data_test_write_seqs_to_fasta.in.tsv
@@ -0,0 +1,5 @@
+seq1 1 0 . . .
+seq2 1 0 . . .
+seq3 1 0 . . .
+seq4 1 0 . . .
+seq5 1 0 . . .
diff --git a/ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv b/ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv
index 7baa402..94cdbd2 100644
--- a/ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv
+++ b/ariba/tests/data/reference_data_write_metadata_tsv.expected.tsv
@@ -1,2 +1,2 @@
-gene1 . . . has anybody got a bottle of orange juice?
-gene2 . . . we didn't burn him
+gene1 1 0 . . has anybody got a bottle of orange juice?
+gene2 1 0 . . we didn't burn him
diff --git a/ariba/tests/data/reference_data_write_metadata_tsv.tsv b/ariba/tests/data/reference_data_write_metadata_tsv.tsv
index 4143803..4703332 100644
--- a/ariba/tests/data/reference_data_write_metadata_tsv.tsv
+++ b/ariba/tests/data/reference_data_write_metadata_tsv.tsv
@@ -1,2 +1,2 @@
-gene2 . . . we didn't burn him
-gene1 . . . has anybody got a bottle of orange juice?
+gene2 1 0 . . we didn't burn him
+gene1 1 0 . . has anybody got a bottle of orange juice?
diff --git a/ariba/tests/data/reference_data_write_metadata_tsv_presence_absence.fa b/ariba/tests/data/reference_data_write_metadata_tsv_presence_absence.fa
deleted file mode 100644
index 1f14442..0000000
--- a/ariba/tests/data/reference_data_write_metadata_tsv_presence_absence.fa
+++ /dev/null
@@ -1,4 +0,0 @@
->gene1
-CCTACTATCGCGTCTGCTG
->gene2
-CGCAGCAGCCGACAGAGAGA
diff --git a/ariba/tests/data/reference_data_write_sequences_to_files.all.fa b/ariba/tests/data/reference_data_write_sequences_to_files.all.fa
new file mode 100644
index 0000000..31220ac
--- /dev/null
+++ b/ariba/tests/data/reference_data_write_sequences_to_files.all.fa
@@ -0,0 +1,10 @@
+>seq1
+ACGT
+>seq2
+ACGTA
+>seq3
+ACGTAC
+>seq4
+ACGTAAA
+>seq5
+ACGTCCC
diff --git a/ariba/tests/data/reference_data_write_sequences_to_files.gene.fa b/ariba/tests/data/reference_data_write_sequences_to_files.gene.fa
new file mode 100644
index 0000000..14539ce
--- /dev/null
+++ b/ariba/tests/data/reference_data_write_sequences_to_files.gene.fa
@@ -0,0 +1,2 @@
+>seq3
+ACGTAC
diff --git a/ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa b/ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa
new file mode 100644
index 0000000..86136eb
--- /dev/null
+++ b/ariba/tests/data/reference_data_write_sequences_to_files.gene.varonly.fa
@@ -0,0 +1,2 @@
+>seq4
+ACGTAAA
diff --git a/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa b/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa
new file mode 100644
index 0000000..5c46b6a
--- /dev/null
+++ b/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.fa
@@ -0,0 +1,4 @@
+>seq1
+ACGT
+>seq5
+ACGTCCC
diff --git a/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa b/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa
new file mode 100644
index 0000000..5ff6016
--- /dev/null
+++ b/ariba/tests/data/reference_data_write_sequences_to_files.noncoding.varonly.fa
@@ -0,0 +1,2 @@
+>seq2
+ACGTA
diff --git a/ariba/tests/data/report_filter_test_init_good.tsv b/ariba/tests/data/report_filter_test_init_good.tsv
index c98baf8..2d67b83 100644
--- a/ariba/tests/data/report_filter_test_init_good.tsv
+++ b/ariba/tests/data/report_filter_test_init_good.tsv
@@ -1,5 +1,5 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 10.5 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 10.5 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.2 1300 12.4 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id3:spam free_text3
-cluster2 variants_only 179 20000 cluster2 1042 1042 42.42 cluster2.scaffold.1 1442 20.2 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:v:I42L:id4:eggs free_text3
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 10.5 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 10.5 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.2 1300 12.4 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id3:spam free_text3
+cluster2 1 0 179 20000 cluster2 1042 1042 42.42 cluster2.scaffold.1 1442 20.2 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:v:I42L:id4:eggs free_text3
diff --git a/ariba/tests/data/report_filter_test_load_report_good.tsv b/ariba/tests/data/report_filter_test_load_report_good.tsv
index 1165ea4..704b716 100644
--- a/ariba/tests/data/report_filter_test_load_report_good.tsv
+++ b/ariba/tests/data/report_filter_test_load_report_good.tsv
@@ -1,5 +1,5 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.2 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.2 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.2 1300 22.2 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id3:spam free_text3
-cluster2 variants_only 179 20000 cluster2 1042 1042 42.42 cluster2.scaffold.1 1442 33.3 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:v:I42L:id4:eggs free_text3
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.2 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.2 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.2 1300 22.2 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id3:spam free_text3
+cluster2 1 1 179 20000 cluster2 1042 1042 42.42 cluster2.scaffold.1 1442 33.3 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:v:I42L:id4:eggs free_text3
diff --git a/ariba/tests/data/report_filter_test_run.expected.tsv b/ariba/tests/data/report_filter_test_run.expected.tsv
index a35a0cf..1bd0ab8 100644
--- a/ariba/tests/data/report_filter_test_run.expected.tsv
+++ b/ariba/tests/data/report_filter_test_run.expected.tsv
@@ -1,6 +1,6 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.4 1 SNP n A51G 1 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
-cluster2 variants_only 179 20000 cluster2 1042 1042 99.0 cluster2.scaffold.1 1442 13.5 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id3:baz free_text3
-cluster4 variants_only 179 20000 cluster4 1042 1042 99.0 cluster4.scaffold.1 1442 14.6 . . . . . . . . . . . . . . . . . free_text3
-cluster5 presence_absence 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 E89G NONSYN 65 265 A;A 766 766 G;C 88;90 .;. 87;90 . .'
-cluster5 presence_absence 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 Q37fs FSHIFT 109 109 A 634 634 . 67 . 67 . .
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.4 1 SNP n A51G 1 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
+cluster2 1 1 179 20000 cluster2 1042 1042 99.0 cluster2.scaffold.1 1442 13.5 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id3:baz free_text3
+cluster4 1 1 179 20000 cluster4 1042 1042 99.0 cluster4.scaffold.1 1442 14.6 . . . . . . . . . . . . . . . . . free_text3
+cluster5 1 0 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 E89G NONSYN 65 265 A;A 766 766 G;C 88;90 .;. 87;90 . .'
+cluster5 1 0 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 Q37fs FSHIFT 109 109 A 634 634 . 67 . 67 . .
diff --git a/ariba/tests/data/report_filter_test_run.in.tsv b/ariba/tests/data/report_filter_test_run.in.tsv
index f701c3a..b6e46a4 100644
--- a/ariba/tests/data/report_filter_test_run.in.tsv
+++ b/ariba/tests/data/report_filter_test_run.in.tsv
@@ -1,9 +1,9 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-cluster1 non_coding 27 10000 cluster1 1000 0 99.42 cluster1.scaffold.1 1300 12.4 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.4 1 SNP n A51G 1 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
-cluster2 variants_only 179 20000 cluster2 1042 1042 99.0 cluster2.scaffold.1 1442 13.5 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id3:baz free_text3
-cluster3 variants_only 179 20000 cluster3 1042 1042 89.0 cluster2.scaffold.1 1442 13.5 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id4:spam free_text3
-cluster4 variants_only 179 20000 cluster4 1042 1042 99.0 cluster4.scaffold.1 1442 14.6 1 SNP p I42L 1 I42L SYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id5:eggs free_text3
-cluster5 presence_absence 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 E89G NONSYN 65 265 A;A 766 766 G;C 88;90 .;. 87;90 . .'
-cluster5 presence_absence 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 Q37fs FSHIFT 109 109 A 634 634 . 67 . 67 . .
-cluster5 presence_absence 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 E89G NONSYN 265 265 A;A 766 766 G;C 88;90 .;. 87;90 . .
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+cluster1 0 0 27 10000 cluster1 1000 0 99.42 cluster1.scaffold.1 1300 12.4 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 12.4 1 SNP n A51G 1 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
+cluster2 1 1 179 20000 cluster2 1042 1042 99.0 cluster2.scaffold.1 1442 13.5 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id3:baz free_text3
+cluster3 1 1 179 20000 cluster3 1042 1042 89.0 cluster2.scaffold.1 1442 13.5 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id4:spam free_text3
+cluster4 1 1 179 20000 cluster4 1042 1042 99.0 cluster4.scaffold.1 1442 14.6 1 SNP p I42L 1 I42L SYN 112 112 C 442 442 T 300 . 290 a:n:I42L:id5:eggs free_text3
+cluster5 1 0 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 E89G NONSYN 65 265 A;A 766 766 G;C 88;90 .;. 87;90 . .'
+cluster5 1 0 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 Q37fs FSHIFT 109 109 A 634 634 . 67 . 67 . .
+cluster5 1 0 528 1874 cluster5 1188 1097 92.43 cluster5.scaffold.1 2218 20.0 0 . p . 0 E89G NONSYN 265 265 A;A 766 766 G;C 88;90 .;. 87;90 . .
diff --git a/ariba/tests/data/report_filter_test_write_report.tsv b/ariba/tests/data/report_filter_test_write_report.tsv
index 11b3ab4..1cafa7b 100644
--- a/ariba/tests/data/report_filter_test_write_report.tsv
+++ b/ariba/tests/data/report_filter_test_write_report.tsv
@@ -1,4 +1,4 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 42.4 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
-cluster1 non_coding 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 42.4 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
-cluster2 variants_only 179 20000 cluster2 1042 1042 42.42 cluster2.scaffold.1 1442 42.4 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:v:I42L:id3:baz free_text3
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 42.4 1 SNP n C42T 0 . . 42 42 C 142 142 C 500 . 500 a:n:C42T:id1:foo free_text
+cluster1 0 0 27 10000 cluster1 1000 999 99.42 cluster1.scaffold.1 1300 42.4 1 SNP n A51G 0 . . 51 51 C 151 151 C 542 . 542 a:n:A51G:id2:bar free_text2
+cluster2 1 1 179 20000 cluster2 1042 1042 42.42 cluster2.scaffold.1 1442 42.4 1 SNP p I42L 1 I42L NONSYN 112 112 C 442 442 T 300 . 290 a:v:I42L:id3:baz free_text3
diff --git a/ariba/tests/data/summary_sample_test_column_names_tuples.tsv b/ariba/tests/data/summary_sample_test_column_names_tuples.tsv
index 4684c42..23e7466 100644
--- a/ariba/tests/data/summary_sample_test_column_names_tuples.tsv
+++ b/ariba/tests/data/summary_sample_test_column_names_tuples.tsv
@@ -1,8 +1,8 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:.:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 0 SNP . . . G15T SNP 15 15 G 85 85 T 17 . 17 . generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
-variants_only1 variants_only 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:.:Ref and reads have variant so report Generic description of variants_only1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:.:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 0 SNP . . . G15T SNP 15 15 G 85 85 T 17 . 17 . generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
+variants_only1 1 1 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:.:Ref and reads have variant so report Generic description of variants_only1
diff --git a/ariba/tests/data/summary_sample_test_column_summary_data.tsv b/ariba/tests/data/summary_sample_test_column_summary_data.tsv
index cf7e5b9..22a42b5 100644
--- a/ariba/tests/data/summary_sample_test_column_summary_data.tsv
+++ b/ariba/tests/data/summary_sample_test_column_summary_data.tsv
@@ -1,8 +1,8 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1_n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 0 SNP . . . G15T SNP 15 15 G 85 85 T 17 . 17 . generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1_n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
-variants_only1 variants_only 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:id4:Ref and reads have variant so report Generic description of variants_only1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1_n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 0 SNP . . . G15T SNP 15 15 G 85 85 T 17 . 17 . generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1_n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
+variants_only1 1 1 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:id4:Ref and reads have variant so report Generic description of variants_only1
diff --git a/ariba/tests/data/summary_sample_test_load_file.in.tsv b/ariba/tests/data/summary_sample_test_load_file.in.tsv
index 524d334..a125211 100644
--- a/ariba/tests/data/summary_sample_test_load_file.in.tsv
+++ b/ariba/tests/data/summary_sample_test_load_file.in.tsv
@@ -1,7 +1,7 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non:coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non:coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
-variants_only1 variants_only 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:id4:Ref and reads have variant so report Generic description of variants_only1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
+variants_only1 1 1 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:id4:Ref and reads have variant so report Generic description of variants_only1
diff --git a/ariba/tests/data/summary_sample_test_var_groups.tsv b/ariba/tests/data/summary_sample_test_var_groups.tsv
index 056296a..a125211 100644
--- a/ariba/tests/data/summary_sample_test_var_groups.tsv
+++ b/ariba/tests/data/summary_sample_test_var_groups.tsv
@@ -1,7 +1,7 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-presence_absence1 presence_absence 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
-variants_only1 variants_only 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:id4:Ref and reads have variant so report Generic description of variants_only1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding1.scaffold.1 279 35.4 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n 120 120 98.33 noncoding2.scaffold.1 279 35.4 . . . . . . . . . . . . . . . . . generic description of noncoding2
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.1 267 35.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+presence_absence1 1 0 27 88 cluster.p 96 96 98.96 presence_absence1.scaffold.2 267 35.1 . . . . . . . . . . . . . . . . . Generic description of presence_absence2
+variants_only1 1 1 27 64 cluster.v 90 90 100.0 variants_only1.scaffold.1 260 42.4 1 SNP p S5T 1 . . 13 15 A;C;C 96 98 A;C;C 12;13;13 .;.;. 12;13;13 variants_only1:p:S5T:id4:Ref and reads have variant so report Generic description of variants_only1
diff --git a/ariba/tests/data/summary_test_gather_output_rows.in.1.tsv b/ariba/tests/data/summary_test_gather_output_rows.in.1.tsv
index 6ec23ec..d1f5f70 100644
--- a/ariba/tests/data/summary_test_gather_output_rows.in.1.tsv
+++ b/ariba/tests/data/summary_test_gather_output_rows.in.1.tsv
@@ -1,3 +1,3 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 0 SNP p A10V . A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:.:Ref has wild, reads have variant so report Generic description of presence_absence1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+presence_absence1 1 0 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 0 SNP p A10V . A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:.:Ref has wild, reads have variant so report Generic description of presence_absence1
diff --git a/ariba/tests/data/summary_test_gather_output_rows.in.2.tsv b/ariba/tests/data/summary_test_gather_output_rows.in.2.tsv
index 322f965..4d7339b 100644
--- a/ariba/tests/data/summary_test_gather_output_rows.in.2.tsv
+++ b/ariba/tests/data/summary_test_gather_output_rows.in.2.tsv
@@ -1,5 +1,5 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id3:variant in ref and reads so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 51.1 0 SNP p A10V . A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:.:Ref has wild, reads have variant so report Generic description of presence_absence1
-variants_only1 variants_only 64 12 variants_only1 90 . . . . . . . . . . . . . . . . . . . . . . .
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id3:variant in ref and reads so should report generic description of noncoding1
+presence_absence1 1 0 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 51.1 0 SNP p A10V . A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:.:Ref has wild, reads have variant so report Generic description of presence_absence1
+variants_only1 1 1 64 12 variants_only1 90 . . . . . . . . . . . . . . . . . . . . . . .
diff --git a/ariba/tests/data/summary_test_get_all_cluster_names.1.tsv b/ariba/tests/data/summary_test_get_all_cluster_names.1.tsv
index 2d06842..9e8e9a2 100644
--- a/ariba/tests/data/summary_test_get_all_cluster_names.1.tsv
+++ b/ariba/tests/data/summary_test_get_all_cluster_names.1.tsv
@@ -1,3 +1,3 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 cluster.p.1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id2:Ref has wild, reads have variant so report Generic description of presence_absence1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+presence_absence1 1 0 27 88 cluster.p.1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id2:Ref has wild, reads have variant so report Generic description of presence_absence1
diff --git a/ariba/tests/data/summary_test_get_all_cluster_names.2.tsv b/ariba/tests/data/summary_test_get_all_cluster_names.2.tsv
index 0058b23..d4cd028 100644
--- a/ariba/tests/data/summary_test_get_all_cluster_names.2.tsv
+++ b/ariba/tests/data/summary_test_get_all_cluster_names.2.tsv
@@ -1,5 +1,5 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 cluster.p.2 96 96 98.96 presence_absence1.scaffold.1 267 51.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-variants_only1 variants_only 64 12 cluster.v.1 90 . . . . . . . . . . . . . . . . . . . . . . .
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+presence_absence1 1 0 27 88 cluster.p.2 96 96 98.96 presence_absence1.scaffold.1 267 51.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+variants_only1 1 1 64 12 cluster.v.1 90 . . . . . . . . . . . . . . . . . . . . . . .
diff --git a/ariba/tests/data/summary_test_get_all_var_groups.1.tsv b/ariba/tests/data/summary_test_get_all_var_groups.1.tsv
index e3465e4..62394c0 100644
--- a/ariba/tests/data/summary_test_get_all_var_groups.1.tsv
+++ b/ariba/tests/data/summary_test_get_all_var_groups.1.tsv
@@ -1,3 +1,3 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 cluster.p.1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id4:Ref has wild, reads have variant so report Generic description of presence_absence1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+presence_absence1 1 0 27 88 cluster.p.1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id4:Ref has wild, reads have variant so report Generic description of presence_absence1
diff --git a/ariba/tests/data/summary_test_get_all_var_groups.2.tsv b/ariba/tests/data/summary_test_get_all_var_groups.2.tsv
index 0058b23..d4cd028 100644
--- a/ariba/tests/data/summary_test_get_all_var_groups.2.tsv
+++ b/ariba/tests/data/summary_test_get_all_var_groups.2.tsv
@@ -1,5 +1,5 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 cluster.p.2 96 96 98.96 presence_absence1.scaffold.1 267 51.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-variants_only1 variants_only 64 12 cluster.v.1 90 . . . . . . . . . . . . . . . . . . . . . . .
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 cluster.n.1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+presence_absence1 1 0 27 88 cluster.p.2 96 96 98.96 presence_absence1.scaffold.1 267 51.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+variants_only1 1 1 64 12 cluster.v.1 90 . . . . . . . . . . . . . . . . . . . . . . .
diff --git a/ariba/tests/data/summary_test_load_input_files.1.tsv b/ariba/tests/data/summary_test_load_input_files.1.tsv
index e1bc25f..1b683a4 100644
--- a/ariba/tests/data/summary_test_load_input_files.1.tsv
+++ b/ariba/tests/data/summary_test_load_input_files.1.tsv
@@ -1,3 +1,3 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id2:Ref has wild, reads have variant so report Generic description of presence_absence1
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 10.0 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+presence_absence1 1 0 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 20.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id2:Ref has wild, reads have variant so report Generic description of presence_absence1
diff --git a/ariba/tests/data/summary_test_load_input_files.2.tsv b/ariba/tests/data/summary_test_load_input_files.2.tsv
index ff47b22..ccaa3d7 100644
--- a/ariba/tests/data/summary_test_load_input_files.2.tsv
+++ b/ariba/tests/data/summary_test_load_input_files.2.tsv
@@ -1,5 +1,5 @@
-#ref_name ref_type flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
-noncoding1 non_coding 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
-noncoding1 non_coding 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
-presence_absence1 presence_absence 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 51.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
-variants_only1 variants_only 64 12 variants_only1 90 . . . . . . . . . . . . . . . . . . . . . . .
+#ref_name gene var_only flag reads cluster ref_len ref_base_assembled pc_ident ctg ctg_len ctg_cov known_var var_type var_seq_type known_var_change has_known_var ref_ctg_change ref_ctg_effect ref_start ref_end ref_nt ctg_start ctg_end ctg_nt smtls_total_depth smtls_alt_nt smtls_alt_depth var_description free_text
+noncoding1 0 0 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A14T 1 A14T SNP 13 13 A 84 84 T 17 . 17 noncoding1:n:A14T:id1:ref has wild type, reads have variant so should report generic description of noncoding1
+noncoding1 0 0 19 78 noncoding1 120 120 98.33 noncoding1.scaffold.1 279 50.1 1 SNP n A6G 1 . . 6 6 G 77 77 G 18 . 18 noncoding1:n:A6G:id2:variant in ref and reads so should report generic description of noncoding1
+presence_absence1 1 0 27 88 presence_absence1 96 96 98.96 presence_absence1.scaffold.1 267 51.1 1 SNP p A10V 1 A10V NONSYN 28 28 C 113 113 T 29 . 29 presence_absence1:p:A10V:id3:Ref has wild, reads have variant so report Generic description of presence_absence1
+variants_only1 1 1 64 12 variants_only1 90 . . . . . . . . . . . . . . . . . . . . . . .
diff --git a/ariba/tests/data/summary_test_newick_from_dist_matrix.distances b/ariba/tests/data/summary_test_newick_from_dist_matrix.distances
index c3ffce3..4c83bf9 100644
--- a/ariba/tests/data/summary_test_newick_from_dist_matrix.distances
+++ b/ariba/tests/data/summary_test_newick_from_dist_matrix.distances
@@ -1,4 +1,4 @@
-file1 file2 file3
-file1 3 2
-file2 0 1
-file3 1 0
+ file1 file2 file3
+file1 0 3 2
+file2 3 0 1
+file3 2 1 0
diff --git a/ariba/tests/data/summary_test_newick_from_dist_matrix.tre b/ariba/tests/data/summary_test_newick_from_dist_matrix.tre
deleted file mode 100644
index a3f5ac3..0000000
--- a/ariba/tests/data/summary_test_newick_from_dist_matrix.tre
+++ /dev/null
@@ -1 +0,0 @@
-(file1:1.58113883,(file2:0.7071067812,file3:0.7071067812):0.8740320489);
diff --git a/ariba/tests/data/summary_test_write_distance_matrix.distances b/ariba/tests/data/summary_test_write_distance_matrix.distances
index c3ffce3..4c83bf9 100644
--- a/ariba/tests/data/summary_test_write_distance_matrix.distances
+++ b/ariba/tests/data/summary_test_write_distance_matrix.distances
@@ -1,4 +1,4 @@
-file1 file2 file3
-file1 3 2
-file2 0 1
-file3 1 0
+ file1 file2 file3
+file1 0 3 2
+file2 3 0 1
+file3 2 1 0
diff --git a/ariba/tests/data/vfdb_parser_test_run.out.tsv b/ariba/tests/data/vfdb_parser_test_run.out.tsv
index 242514c..253ce52 100644
--- a/ariba/tests/data/vfdb_parser_test_run.out.tsv
+++ b/ariba/tests/data/vfdb_parser_test_run.out.tsv
@@ -1,2 +1,3 @@
-abcD.VF123(gi:1234).genus1_species1 . . . foobar description1 [abc]
-efgH.VF234(gi:2345).genus2_species2 . . . spam eggs description2 [abc]
+abcD.VF123(gi:1234).genus1_species1 1 0 . . foobar description1 [abc]
+efgH.VF234(gi:2345).genus2_species2 1 0 . . spam eggs description2 [abc]
+seq1 blah 1 0 . . .
diff --git a/ariba/tests/external_progs_test.py b/ariba/tests/external_progs_test.py
index 590b086..246ae01 100644
--- a/ariba/tests/external_progs_test.py
+++ b/ariba/tests/external_progs_test.py
@@ -1,9 +1,8 @@
import unittest
-import os
from ariba import external_progs
class TestExternalProgs(unittest.TestCase):
def test_external_progs_ok(self):
'''Test that external programs are found'''
- progs = external_progs.ExternalProgs(verbose=True)
+ external_progs.ExternalProgs(verbose=True)
diff --git a/ariba/tests/flag_test.py b/ariba/tests/flag_test.py
index 95801fa..7704965 100644
--- a/ariba/tests/flag_test.py
+++ b/ariba/tests/flag_test.py
@@ -50,7 +50,7 @@ class TestFlag(unittest.TestCase):
'[ ] assembly_fail',
'[ ] variants_suggest_collapsed_repeat',
'[ ] hit_both_strands',
- '[ ] has_nonsynonymous_variants',
+ '[ ] has_variant',
'[ ] ref_seq_choose_fail',
])
diff --git a/ariba/tests/histogram_test.py b/ariba/tests/histogram_test.py
index ea2b707..49180c5 100644
--- a/ariba/tests/histogram_test.py
+++ b/ariba/tests/histogram_test.py
@@ -33,7 +33,7 @@ class TestCluster(unittest.TestCase):
self.assertEqual(2, len(h))
h.add(2)
self.assertEqual(3, len(h))
-
+
def test_add(self):
'''Test add'''
@@ -44,6 +44,8 @@ class TestCluster(unittest.TestCase):
self.assertEqual({3:2}, h.bins)
h.add(42)
self.assertEqual({3:2, 42:1}, h.bins)
+ h.add(42, count=11)
+ self.assertEqual({3:2, 42:12}, h.bins)
def test_stats(self):
diff --git a/ariba/tests/link_test.py b/ariba/tests/link_test.py
index 669819d..06c6de5 100644
--- a/ariba/tests/link_test.py
+++ b/ariba/tests/link_test.py
@@ -15,10 +15,9 @@ class TestLink(unittest.TestCase):
sam_reader = pysam.Samfile(os.path.join(data_dir, 'link_test_init.reads.no_link.bam'), "rb")
ref_lengths = {}
pyfastaq.tasks.lengths_from_fai(os.path.join(data_dir, 'link_test_init.ref.fa.fai'), ref_lengths)
- links_from_bam = []
for sam in sam_reader.fetch(until_eof=True):
with self.assertRaises(link.Error):
- l = link.Link(sam, sam_reader, ref_lengths)
+ link.Link(sam, sam_reader, ref_lengths)
def test_init_with_link(self):
@@ -85,7 +84,7 @@ class TestLink(unittest.TestCase):
for i in range(len(links)):
links[i].sort()
self.assertEqual(links[i], expected[i])
-
+
def test_merge(self):
'''test merge'''
@@ -95,7 +94,7 @@ class TestLink(unittest.TestCase):
with self.assertRaises(link.Error):
link1.merge(link1)
link2.merge(link2)
-
+
link1.merge(link2)
self.assertEqual(link1, merged)
diff --git a/ariba/tests/mapping_test.py b/ariba/tests/mapping_test.py
index 786ffe8..b1010ea 100644
--- a/ariba/tests/mapping_test.py
+++ b/ariba/tests/mapping_test.py
@@ -1,6 +1,5 @@
import unittest
import os
-import shutil
import pysam
import pyfastaq
from ariba import mapping, external_progs
diff --git a/ariba/tests/mash_test.py b/ariba/tests/mash_test.py
new file mode 100644
index 0000000..289f5fd
--- /dev/null
+++ b/ariba/tests/mash_test.py
@@ -0,0 +1,21 @@
+import unittest
+import os
+from ariba import mash
+
+modules_dir = os.path.dirname(os.path.abspath(mash.__file__))
+data_dir = os.path.join(modules_dir, 'tests', 'data')
+
+
+class TestMash(unittest.TestCase):
+ def test_run(self):
+ '''test run'''
+ ref_in = os.path.join(data_dir, 'mash_test_run.in.ref.fa')
+ qry_in = os.path.join(data_dir, 'mash_test_run.in.qry.fa')
+ masher = mash.Masher(ref_in, qry_in)
+ tmp_out = 'tmp.mash_test_run.out'
+ got = masher.run(tmp_out)
+ self.assertEqual('ref2', got)
+ os.unlink(tmp_out)
+ os.unlink(ref_in + '.msh')
+ os.unlink(qry_in + '.msh')
+
diff --git a/ariba/tests/read_filter_test.py b/ariba/tests/read_filter_test.py
new file mode 100644
index 0000000..c705835
--- /dev/null
+++ b/ariba/tests/read_filter_test.py
@@ -0,0 +1,54 @@
+import unittest
+import sys
+import os
+import filecmp
+from ariba import read_filter, read_store, external_progs
+
+modules_dir = os.path.dirname(os.path.abspath(read_filter.__file__))
+data_dir = os.path.join(modules_dir, 'tests', 'data')
+
+
+class TestReadFilter(unittest.TestCase):
+ def setUp(self):
+ self.external_progs = external_progs.ExternalProgs()
+
+
+ def test_run_cdhit_est_2d(self):
+ '''test _run_cdhit_est_2d'''
+ reads_in = os.path.join(data_dir, 'read_filter_test_run_cdhit_est_2d.reads.in.fa')
+ ref_in = os.path.join(data_dir, 'read_filter_test_run_cdhit_est_2d.ref.in.fa')
+ tmp_out = 'tmp.test_run_cdhit_est_2d.out'
+ read_filter.ReadFilter._run_cdhit_est_2d(ref_in, reads_in, tmp_out, self.external_progs.exe('cdhit2d'))
+ got_clustr = tmp_out + '.clstr'
+ expected_clstr = os.path.join(data_dir, 'read_filter_test_run_cdhit_est_2d.expected.clstr')
+ self.assertTrue(filecmp.cmp(got_clustr, expected_clstr, shallow=False))
+ os.unlink(got_clustr)
+
+
+ def test_cdhit_clstr_to_reads(self):
+ '''test _cdhit_clstr_to_reads'''
+ infile = os.path.join(data_dir, 'read_filter_cdhit_clstr_to_reads.in.clstr')
+ expected = {1, 3, 5, 7, 9, 11}
+ got = read_filter.ReadFilter._cdhit_clstr_to_reads(infile)
+ self.assertEqual(expected, got)
+
+
+ def test_run(self):
+ '''test run'''
+ rstore_infile = os.path.join(data_dir, 'read_filter_test_run.in.read_store')
+ ref_fasta = os.path.join(data_dir, 'read_filter_test_run.in.ref.fa')
+ expected_reads1 = os.path.join(data_dir, 'read_filter_test_run.expected.reads_1.fq')
+ expected_reads2 = os.path.join(data_dir, 'read_filter_test_run.expected.reads_2.fq')
+ tmp_rstore_prefix = 'tmp.filter_test_run.read_store'
+ tmp_reads1 = 'tmp.filter_test_run.reads_1.fq'
+ tmp_reads2 = 'tmp.filter_test_run.reads_2.fq'
+ rstore = read_store.ReadStore(rstore_infile, tmp_rstore_prefix)
+ rfilter = read_filter.ReadFilter(rstore, ref_fasta, '1', sys.stdout)
+ got_reads, got_bases = rfilter.run(tmp_reads1, tmp_reads2)
+ self.assertEqual(12, got_reads)
+ self.assertEqual(912, got_bases)
+ self.assertTrue(filecmp.cmp(expected_reads1, tmp_reads1, shallow=False))
+ self.assertTrue(filecmp.cmp(expected_reads2, tmp_reads2, shallow=False))
+ os.unlink(tmp_reads1)
+ os.unlink(tmp_reads2)
+ rstore.clean()
diff --git a/ariba/tests/read_store_test.py b/ariba/tests/read_store_test.py
index 842eed5..f6a58c0 100644
--- a/ariba/tests/read_store_test.py
+++ b/ariba/tests/read_store_test.py
@@ -1,5 +1,4 @@
import unittest
-import sys
import os
import shutil
import filecmp
@@ -45,16 +44,75 @@ class TestReadStore(unittest.TestCase):
os.unlink(tmpfile_gz + '.tbi')
- def test_get_reads(self):
- '''Test get_reads'''
+ def test_get_reads_fq_pair(self):
+ '''Test get_reads fastq pair'''
infile = os.path.join(data_dir, 'read_store_test_get_reads.in')
- expected1 = os.path.join(data_dir, 'read_store_test_get_reads.reads_1.fq')
- expected2 = os.path.join(data_dir, 'read_store_test_get_reads.reads_2.fq')
+ expected1 = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads_1.fq')
+ expected2 = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads_2.fq')
outprefix = 'tmp.read_store_test_get_reads'
reads1 = outprefix + '.reads_1.fq'
reads2 = outprefix + '.reads_2.fq'
rstore = read_store.ReadStore(infile, outprefix)
- rstore.get_reads('cluster2', reads1, reads2)
+ got_reads, got_bases = rstore.get_reads('cluster2', reads1, out2=reads2)
+ self.assertEqual(6, got_reads)
+ self.assertEqual(24, got_bases)
+ self.assertTrue(filecmp.cmp(expected1, reads1))
+ self.assertTrue(filecmp.cmp(expected2, reads2))
+ os.unlink(outprefix + '.gz')
+ os.unlink(outprefix + '.gz.tbi')
+ os.unlink(reads1)
+ os.unlink(reads2)
+
+
+ def test_get_reads_fq_interleave(self):
+ '''Test get_reads fastq interleaved'''
+ infile = os.path.join(data_dir, 'read_store_test_get_reads.in')
+ expected = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads.fq')
+ outprefix = 'tmp.read_store_test_get_reads'
+ reads = outprefix + '.reads_1.fq'
+ rstore = read_store.ReadStore(infile, outprefix)
+ got_reads, got_bases = rstore.get_reads('cluster2', reads)
+ self.assertEqual(6, got_reads)
+ self.assertEqual(24, got_bases)
+ self.assertTrue(filecmp.cmp(expected, reads))
+ os.unlink(outprefix + '.gz')
+ os.unlink(outprefix + '.gz.tbi')
+ os.unlink(reads)
+
+
+ def test_get_reads_fa_pair(self):
+ '''Test get_reads fasta pair'''
+ infile = os.path.join(data_dir, 'read_store_test_get_reads.in')
+ expected1 = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads_1.fa')
+ expected2 = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads_2.fa')
+ outprefix = 'tmp.read_store_test_get_reads'
+ reads1 = outprefix + '.reads_1.fa'
+ reads2 = outprefix + '.reads_2.fa'
+ rstore = read_store.ReadStore(infile, outprefix)
+ got_reads, got_bases = rstore.get_reads('cluster2', reads1, out2=reads2, fasta=True)
+ self.assertEqual(6, got_reads)
+ self.assertEqual(24, got_bases)
+ self.assertTrue(filecmp.cmp(expected1, reads1))
+ self.assertTrue(filecmp.cmp(expected2, reads2))
+ os.unlink(outprefix + '.gz')
+ os.unlink(outprefix + '.gz.tbi')
+ os.unlink(reads1)
+ os.unlink(reads2)
+
+
+ def test_get_reads_subset(self):
+ '''Test get_reads subset'''
+ infile = os.path.join(data_dir, 'read_store_test_get_reads.in')
+ expected1 = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads_subset.1.fq')
+ expected2 = os.path.join(data_dir, 'read_store_test_get_reads.expected.reads_subset.2.fq')
+ wanted_ids = {1, 11}
+ outprefix = 'tmp.read_store_test_get_reads'
+ reads1 = outprefix + '.reads_1.fq'
+ reads2 = outprefix + '.reads_2.fq'
+ rstore = read_store.ReadStore(infile, outprefix)
+ got_reads, got_bases = rstore.get_reads('cluster2', reads1, out2=reads2, wanted_ids=wanted_ids)
+ self.assertEqual(4, got_reads)
+ self.assertEqual(16, got_bases)
self.assertTrue(filecmp.cmp(expected1, reads1))
self.assertTrue(filecmp.cmp(expected2, reads2))
os.unlink(outprefix + '.gz')
diff --git a/ariba/tests/ref_preparer_test.py b/ariba/tests/ref_preparer_test.py
index 06feb9b..e48a3af 100644
--- a/ariba/tests/ref_preparer_test.py
+++ b/ariba/tests/ref_preparer_test.py
@@ -1,6 +1,6 @@
import unittest
-import sys
import os
+import shutil
import filecmp
from ariba import external_progs, ref_preparer
@@ -9,113 +9,73 @@ data_dir = os.path.join(modules_dir, 'tests', 'data')
class TestRefPreparer(unittest.TestCase):
- def test_get_ref_files_ref_prefix(self):
- '''test _get_ref_files using ref_prefix'''
- ref_prefix = os.path.abspath('tmp.test.ref_preparer')
- presabs = ref_prefix + '.presence_absence.fa'
- varonly = ref_prefix + '.variants_only.fa'
- noncoding = ref_prefix + '.noncoding.fa'
- metadata = ref_prefix + '.metadata.tsv'
-
- for filename in (presabs, varonly, noncoding, metadata):
- with open(filename, 'w') as f:
- pass
-
- got = ref_preparer.RefPreparer._get_ref_files(ref_prefix, None, None, None, None)
- expected = {
- 'presabs': presabs,
- 'varonly': varonly,
- 'noncoding': noncoding,
- 'metadata': metadata,
+ def test_rename_clusters(self):
+ '''test _rename_clusters'''
+ clusters_in = {
+ '0': {'no_dot_in_name'},
+ '1': {'another_no_dot_in_name'},
+ '2': {'foo.blah_blah_blah', 'foo.xyz'},
+ '3': {'foo.abc', 'foo.def'},
+ '4': {'pre1.abc', 'pre2.abc'},
+ '5': {'pre1.def', 'pre2.pqr', 'pre2.zxy'},
+ '6': {'prefix1.abc', 'prefix1.def', 'something_else.abc'},
+ '7': {'prefix1.fgh', 'prefix1.ijk', 'something_else_again.abc'},
+ '8': {'xyz.1', 'xyz.2', 'abcdefgh'},
+ '9': {'a.foo', 'a.bar'},
}
- self.assertEqual(expected, got)
-
- os.unlink(metadata)
- got = ref_preparer.RefPreparer._get_ref_files(ref_prefix, None, None, None, None)
- expected['metadata'] = None
- self.assertEqual(expected, got)
-
- os.unlink(presabs)
- got = ref_preparer.RefPreparer._get_ref_files(ref_prefix, None, None, None, None)
- expected['presabs'] = None
- self.assertEqual(expected, got)
-
- os.unlink(varonly)
- got = ref_preparer.RefPreparer._get_ref_files(ref_prefix, None, None, None, None)
- expected['varonly'] = None
- self.assertEqual(expected, got)
-
- os.unlink(noncoding)
- with self.assertRaises(ref_preparer.Error):
- ref_preparer.RefPreparer._get_ref_files(ref_prefix, None, None, None, None)
-
-
- def test_get_ref_files_naming_each_file(self):
- ref_prefix = os.path.abspath('tmp.test.ref_preparer')
- presabs = ref_prefix + '.presence_absence.fa'
- varonly = ref_prefix + '.variants_only.fa'
- noncoding = ref_prefix + '.noncoding.fa'
- metadata = ref_prefix + '.metadata.tsv'
- not_a_file = 'notafile'
- self.assertFalse(os.path.exists(not_a_file))
-
- for filename in (presabs, varonly, noncoding, metadata):
- with open(filename, 'w') as f:
- pass
-
- got = ref_preparer.RefPreparer._get_ref_files(None, presabs, varonly, noncoding, metadata)
expected = {
- 'presabs': presabs,
- 'varonly': varonly,
- 'noncoding': noncoding,
- 'metadata': metadata,
+ 'cluster_1': {'no_dot_in_name'},
+ 'cluster_2': {'another_no_dot_in_name'},
+ 'foo_1': {'foo.blah_blah_blah', 'foo.xyz'},
+ 'foo_2': {'foo.abc', 'foo.def'},
+ 'pre-_1': {'pre1.abc', 'pre2.abc'},
+ 'pre-_2': {'pre1.def', 'pre2.pqr', 'pre2.zxy'},
+ 'prefix1+_1': {'prefix1.abc', 'prefix1.def', 'something_else.abc'},
+ 'prefix1+_2': {'prefix1.fgh', 'prefix1.ijk', 'something_else_again.abc'},
+ 'xyz+': {'xyz.1', 'xyz.2', 'abcdefgh'},
+ 'cluster_3': {'a.foo', 'a.bar'},
}
+ self.maxDiff = None
+ got = ref_preparer.RefPreparer._rename_clusters(clusters_in)
self.assertEqual(expected, got)
- got = ref_preparer.RefPreparer._get_ref_files(None, presabs, varonly, noncoding, None)
- expected['metadata'] = None
- self.assertEqual(expected, got)
-
- got = ref_preparer.RefPreparer._get_ref_files(None, None, varonly, noncoding, None)
- expected['presabs'] = None
- self.assertEqual(expected, got)
-
- got = ref_preparer.RefPreparer._get_ref_files(None, None, None, noncoding, None)
- expected['varonly'] = None
- self.assertEqual(expected, got)
-
- with self.assertRaises(ref_preparer.Error):
- got = ref_preparer.RefPreparer._get_ref_files(None, None, None, None, None)
- with self.assertRaises(ref_preparer.Error):
- got = ref_preparer.RefPreparer._get_ref_files(None, not_a_file, None, noncoding, None)
+ def test_run(self):
+ '''test run'''
+ fasta_in = [
+ os.path.join(data_dir, 'ref_preparer_test_run.in.1.fa'),
+ os.path.join(data_dir, 'ref_preparer_test_run.in.2.fa'),
+ os.path.join(data_dir, 'ref_preparer_test_run.in.3.fa'),
+ ]
+ tsv_in = [
+ os.path.join(data_dir, 'ref_preparer_test_run.in.1.tsv'),
+ os.path.join(data_dir, 'ref_preparer_test_run.in.2.tsv'),
+ ]
- with self.assertRaises(ref_preparer.Error):
- got = ref_preparer.RefPreparer._get_ref_files(None, presabs, not_a_file, None, None)
-
- with self.assertRaises(ref_preparer.Error):
- got = ref_preparer.RefPreparer._get_ref_files(None, presabs, None, not_a_file, None)
-
- os.unlink(presabs)
- os.unlink(varonly)
- os.unlink(noncoding)
- os.unlink(metadata)
-
-
- def test_write_info_file(self):
- '''test _write_info_file'''
extern_progs = external_progs.ExternalProgs()
- refprep = ref_preparer.RefPreparer(extern_progs, genetic_code=1)
- refprep.filenames = {
- 'presabs': 'presabs.fa',
- 'varonly': None,
- 'noncoding': None,
- 'metadata': 'metadata.tsv',
- }
- tmpfile = 'tmp.test_write_info_file.out'
- refprep._write_info_file(tmpfile)
- expected = os.path.join(data_dir, 'ref_preparer_test_write_info_file.out')
- self.assertTrue(filecmp.cmp(expected, tmpfile, shallow=False))
- os.unlink(tmpfile)
+ refprep = ref_preparer.RefPreparer(fasta_in, tsv_in, extern_progs, genetic_code=1)
+ tmp_out = 'tmp.ref_preparer_test_run'
+ refprep.run(tmp_out)
+ expected_outdir = os.path.join(data_dir, 'ref_preparer_test_run.out')
+
+ test_files = [
+ '01.filter.check_metadata.tsv',
+ '01.filter.check_genes.log',
+ '01.filter.check_metadata.log',
+ '02.cdhit.all.fa',
+ '02.cdhit.clusters.tsv',
+ '02.cdhit.gene.fa',
+ '02.cdhit.gene.varonly.fa',
+ '02.cdhit.noncoding.fa',
+ '02.cdhit.noncoding.varonly.fa',
+ ]
+
+ for filename in test_files:
+ expected = os.path.join(expected_outdir, filename)
+ got = os.path.join(tmp_out, filename)
+ self.assertTrue(filecmp.cmp(expected, got, shallow=False))
+
+ shutil.rmtree(tmp_out)
+
diff --git a/ariba/tests/reference_data_test.py b/ariba/tests/reference_data_test.py
index cb64077..4714e29 100644
--- a/ariba/tests/reference_data_test.py
+++ b/ariba/tests/reference_data_test.py
@@ -11,172 +11,218 @@ data_dir = os.path.join(modules_dir, 'tests', 'data')
class TestReferenceData(unittest.TestCase):
def test_init_fails(self):
'''Test __init__ fails when it should'''
+ empty_fasta = os.path.join(data_dir, 'reference_data_init_fails.empty.fa')
+ empty_tsv = os.path.join(data_dir, 'reference_data_init_fails.empty.tsv')
+ fasta = os.path.join(data_dir, 'reference_data_init_fails.in.fa')
with self.assertRaises(reference_data.Error):
- ref_data = reference_data.ReferenceData()
-
- presence_absence_bad = os.path.join(data_dir, 'reference_data_init_presence_absence_bad.fa')
-
- with self.assertRaises(reference_data.Error):
- ref_data = reference_data.ReferenceData(presence_absence_fa=presence_absence_bad)
-
- empty_fasta = os.path.join(data_dir, 'reference_data_init_empty.fa')
-
- with self.assertRaises(reference_data.Error):
- ref_data = reference_data.ReferenceData(presence_absence_fa=empty_fasta)
+ reference_data.ReferenceData([empty_fasta], [empty_tsv])
+ reference_data.ReferenceData([fasta], [empty_tsv])
def test_init_ok(self):
'''Test init with good input'''
- tsv_file = os.path.join(data_dir, 'reference_data_init.tsv')
- presence_absence_fa = os.path.join(data_dir, 'reference_data_init_presence_absence.fa')
- meta1 = sequence_metadata.SequenceMetadata('gene1\tn\tA42G\t.\tfree text')
- meta2 = sequence_metadata.SequenceMetadata('gene1\tn\tA42T\t.\tfree text2')
- meta3 = sequence_metadata.SequenceMetadata('gene1\tn\tG13T\t.\tconfers killer rabbit resistance')
- meta4 = sequence_metadata.SequenceMetadata("gene2\tp\tI42L\t.\tremoves tardigrade's space-living capability")
+ fasta_in = os.path.join(data_dir, 'reference_data_init_ok.in.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_init_ok.in.tsv')
+ meta1 = sequence_metadata.SequenceMetadata('gene1\t1\t0\tR2S\t.\tconfers killer rabbit resistance')
+ meta2 = sequence_metadata.SequenceMetadata("gene2\t1\t0\tI42L\t.\tremoves tardigrade's space-living capability")
expected_metadata = {
'gene1': {
- 'n': {12: {meta3}, 41: {meta1, meta2}},
- 'p': {},
+ 'seq_type': 'p',
+ 'variant_only': False,
+ 'n': {},
+ 'p': {1: {meta1}},
'.': set(),
},
'gene2': {
+ 'seq_type': 'p',
+ 'variant_only': False,
'n': {},
- 'p': {41: {meta4}},
+ 'p': {41: {meta2}},
'.': set(),
}
}
- ref_data = reference_data.ReferenceData(presence_absence_fa=presence_absence_fa, metadata_tsv=tsv_file)
+ ref_data = reference_data.ReferenceData([fasta_in], [tsv_in])
self.assertEqual(expected_metadata, ref_data.metadata)
expected_seqs_dict = {
- 'presence_absence': {
- 'gene1': pyfastaq.sequences.Fasta('gene1', 'CATTCCTAGCGTCGTCTATCGTCG'),
- 'gene2': pyfastaq.sequences.Fasta('gene2', 'AAAAACCCCGGGGTTTT')
- },
- 'variants_only': {},
- 'non_coding': {},
+ 'gene1': pyfastaq.sequences.Fasta('gene1', 'CATCGTCGTCTATCGTCGTCCTAG'),
+ 'gene2': pyfastaq.sequences.Fasta('gene2', 'AAAAACCCCGGGGTTTT')
}
- self.assertEqual(expected_seqs_dict, ref_data.seq_dicts)
-
-
- def test_dict_keys_intersection(self):
- '''Test dict_keys_intersection'''
- d1 = {'a': 1, 'b':2, 'c': 42}
- d2 = {'a': 42}
- d3 = {'a': 11, 'b': 'xyz'}
- self.assertEqual({'a'}, reference_data.ReferenceData._dict_keys_intersection([d1, d2, d3]))
-
-
- def test_get_filename(self):
- '''Test _get_filename'''
- file_that_exists_abs = os.path.join(data_dir, 'reference_data_get_filename')
- file_that_exists_rel = os.path.relpath(file_that_exists_abs)
- self.assertEqual(file_that_exists_abs, reference_data.ReferenceData._get_filename(file_that_exists_rel))
- self.assertIsNone(reference_data.ReferenceData._get_filename(None))
-
- with self.assertRaises(reference_data.Error):
- reference_data.ReferenceData._get_filename('thisisnotafilesoshouldthrowerror,unlessyoujustmadeitwhichseemslikeanoddthingtodoandyoudeservethefailingtest')
+ self.assertEqual(expected_seqs_dict, ref_data.sequences)
def test_load_metadata_tsv(self):
'''Test _load_metadata_tsv'''
- meta1 = sequence_metadata.SequenceMetadata('gene1\tn\tA42G\t.\tfree text')
- meta2 = sequence_metadata.SequenceMetadata('gene1\tn\tG13T\t.\tconfers killer rabbit resistance')
- meta3 = sequence_metadata.SequenceMetadata("gene2\tp\tI42L\t.\tremoves tardigrade's space-living capability")
+ meta1 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA42G\t.\tfree text')
+ meta2 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tG13T\t.\tconfers killer rabbit resistance')
+ meta3 = sequence_metadata.SequenceMetadata("gene2\t1\t1\tI42L\t.\tremoves tardigrade's space-living capability")
expected = {
'gene1': {
+ 'seq_type': 'n',
+ 'variant_only': False,
'n': {12: {meta2}, 41: {meta1}},
'p': {},
'.': set(),
},
'gene2': {
+ 'seq_type': 'p',
+ 'variant_only': True,
'n': {},
'p': {41: {meta3}},
'.': set(),
}
}
+ got = {}
tsv_file = os.path.join(data_dir, 'reference_data_load_metadata_tsv.tsv')
- self.assertEqual(expected, reference_data.ReferenceData._load_metadata_tsv(tsv_file))
+ reference_data.ReferenceData._load_metadata_tsv(tsv_file, got)
+ self.assertEqual(expected, got)
+
+
+ def test_load_all_metadata_tsvs(self):
+ '''Test _load_all_metadata_tsvs'''
+ input_files = [os.path.join(data_dir, 'reference_data_load_all_metadata_tsvs.' + x + '.tsv') for x in ['1', '2']]
+ meta1 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA42G\t.\tfree text')
+ meta2 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tG13T\t.\tconfers killer rabbit resistance')
+ meta3 = sequence_metadata.SequenceMetadata("gene2\t1\t0\tI42L\t.\tremoves tardigrade's space-living capability")
+ expected = {
+ 'gene1': {
+ 'seq_type': 'n',
+ 'variant_only': False,
+ 'n': {12: {meta2}, 41: {meta1}},
+ 'p': {},
+ '.': set(),
+ },
+ 'gene2': {
+ 'seq_type': 'p',
+ 'variant_only': False,
+ 'n': {},
+ 'p': {41: {meta3}},
+ '.': set(),
+ }
+ }
+
+ got = reference_data.ReferenceData._load_all_metadata_tsvs(input_files)
+ self.assertEqual(expected, got)
def test_load_fasta_file(self):
'''Test _load_fasta_file'''
+ got = {}
expected = {'seq1': pyfastaq.sequences.Fasta('seq1', 'ACGT')}
filename = os.path.join(data_dir, 'reference_data_load_fasta_file.fa')
- got = reference_data.ReferenceData._load_fasta_file(filename)
+ reference_data.ReferenceData._load_fasta_file(filename, got)
self.assertEqual(expected, got)
- def test_find_gene_in_seqs(self):
- '''Test _find_gene_in_seqs'''
- seqs_dict = {
- 'dict1': {'name1': 'seq1', 'name2': 'seq2'},
- 'dict2': {'name3': 'seq3'}
+ def test_load_all_fasta_files(self):
+ '''Test _load_all_fasta_files'''
+ filenames = [os.path.join(data_dir, 'reference_data_load_all_fasta_files.in.' + x) for x in ['1', '2']]
+ expected = {
+ 'seq1': pyfastaq.sequences.Fasta('seq1', 'ACGT'),
+ 'seq2': pyfastaq.sequences.Fasta('seq2', 'TTTT')
}
- self.assertEqual(None, reference_data.ReferenceData._find_gene_in_seqs('name42', seqs_dict))
- self.assertEqual('dict1', reference_data.ReferenceData._find_gene_in_seqs('name1', seqs_dict))
- self.assertEqual('dict1', reference_data.ReferenceData._find_gene_in_seqs('name2', seqs_dict))
- self.assertEqual('dict2', reference_data.ReferenceData._find_gene_in_seqs('name3', seqs_dict))
+ got = reference_data.ReferenceData._load_all_fasta_files(filenames)
+ self.assertEqual(expected, got)
+
+
+ def test_load_input_files_and_check_seq_names_ok(self):
+ '''Test _load_input_files_and_check_seq_names with good input'''
+ fasta_files = [os.path.join(data_dir, 'reference_data_load_input_files_and_check_seq_names.good.in.fa.' + x) for x in ['1', '2']]
+ metadata_files = [os.path.join(data_dir, 'reference_data_load_input_files_and_check_seq_names.good.in.csv.' + x) for x in ['1', '2']]
+ expected_seqs = {
+ 'seq1': pyfastaq.sequences.Fasta('seq1', 'ACGT'),
+ 'seq2': pyfastaq.sequences.Fasta('seq2', 'TTTT')
+ }
+ meta1 = sequence_metadata.SequenceMetadata('seq1\t0\t0\tA1G\t.\tfree text')
+ meta2 = sequence_metadata.SequenceMetadata("seq2\t0\t0\t.\t.\tspam eggs")
+ expected_meta = {
+ 'seq1': {
+ 'seq_type': 'n',
+ 'variant_only': False,
+ 'n': {0: {meta1}},
+ 'p': {},
+ '.': set(),
+ },
+ 'seq2': {
+ 'seq_type': 'n',
+ 'variant_only': False,
+ 'n': {},
+ 'p': {},
+ '.': {meta2},
+ }
+ }
+ got_seqs, got_meta = reference_data.ReferenceData._load_input_files_and_check_seq_names(fasta_files, metadata_files)
+ self.assertEqual(expected_seqs, got_seqs)
+ self.assertEqual(expected_meta, got_meta)
+
+
+ def test_load_input_files_and_check_seq_names_bad(self):
+ '''Test _load_input_files_and_check_seq_names with bad input'''
+ fasta_files = [os.path.join(data_dir, 'reference_data_load_input_files_and_check_seq_names.bad.in.fa.' + x) for x in ['1', '2']]
+ metadata_files = [os.path.join(data_dir, 'reference_data_load_input_files_and_check_seq_names.bad.in.csv.' + x) for x in ['1', '2']]
+ with self.assertRaises(reference_data.Error):
+ reference_data.ReferenceData._load_input_files_and_check_seq_names(fasta_files, metadata_files)
def test_write_metadata_tsv(self):
'''Test _write_metadata_tsv'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_write_metadata_tsv_presence_absence.fa')
metadata_tsv_in = os.path.join(data_dir, 'reference_data_write_metadata_tsv.tsv')
metadata_tsv_expected = os.path.join(data_dir, 'reference_data_write_metadata_tsv.expected.tsv')
tmp_tsv = 'tmp.test_write_metadata_tsv.out.tsv'
- ref_data = reference_data.ReferenceData(presence_absence_fa=presence_absence_fa, metadata_tsv=metadata_tsv_in)
- ref_data._write_metadata_tsv(ref_data.metadata, tmp_tsv)
+ metadata = reference_data.ReferenceData._load_all_metadata_tsvs([metadata_tsv_in])
+ reference_data.ReferenceData._write_metadata_tsv(metadata, tmp_tsv)
self.assertTrue(filecmp.cmp(metadata_tsv_expected, tmp_tsv, shallow=False))
os.unlink(tmp_tsv)
- def test_write_dict_of_sequences(self):
- '''Test _write_dict_of_sequences'''
- d = {
+ def test_write_sequences_to_files(self):
+ '''Test _write_sequences_to_files'''
+ sequences = {
'seq1': pyfastaq.sequences.Fasta('seq1', 'ACGT'),
- 'seq2': pyfastaq.sequences.Fasta('seq2', 'GGGG'),
+ 'seq2': pyfastaq.sequences.Fasta('seq2', 'ACGTA'),
+ 'seq3': pyfastaq.sequences.Fasta('seq3', 'ACGTAC'),
+ 'seq4': pyfastaq.sequences.Fasta('seq4', 'ACGTAAA'),
+ 'seq5': pyfastaq.sequences.Fasta('seq5', 'ACGTCCC'),
+ }
+ metadata = {
+ 'seq1': {'seq_type': 'n', 'variant_only': False},
+ 'seq2': {'seq_type': 'n', 'variant_only': True},
+ 'seq3': {'seq_type': 'p', 'variant_only': False},
+ 'seq4': {'seq_type': 'p', 'variant_only': True},
+ 'seq5': {'seq_type': 'n', 'variant_only': False},
}
- tmp_file = 'tmp.test_write_dict_of_sequences.fa'
- reference_data.ReferenceData._write_dict_of_sequences(d, tmp_file)
- expected = os.path.join(data_dir, 'reference_data_write_dict_of_sequences.fa')
- self.assertTrue(filecmp.cmp(expected, tmp_file, shallow=False))
- os.unlink(tmp_file)
+ tmp_prefix = 'tmp.test_write_sequences_to_files'
+ reference_data.ReferenceData._write_sequences_to_files(sequences, metadata, tmp_prefix)
+ expected_prefix = os.path.join(data_dir, 'reference_data_write_sequences_to_files')
+ for suffix in ['gene.fa', 'gene.varonly.fa', 'noncoding.fa', 'noncoding.varonly.fa', 'all.fa']:
+ expected = expected_prefix + '.' + suffix
+ got = tmp_prefix + '.' + suffix
+ self.assertTrue(filecmp.cmp(expected, got, shallow=False))
+ os.unlink(got)
def test_filter_bad_variant_data(self):
'''Test _filter_bad_variant_data'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_filter_bad_data_presence_absence.in.fa')
- expected_presence_absence_fa = os.path.join(data_dir, 'reference_data_filter_bad_data_presence_absence.expected.fa')
- variants_only_fa = os.path.join(data_dir, 'reference_data_filter_bad_data_variants_only.in.fa')
- expected_variants_only_fa = os.path.join(data_dir, 'reference_data_filter_bad_data_variants_only.expected.fa')
- non_coding_fa = os.path.join(data_dir, 'reference_data_filter_bad_data_non_coding.in.fa')
- expected_non_coding_fa = os.path.join(data_dir, 'reference_data_filter_bad_data_non_coding.expected.fa')
+ fasta_in = os.path.join(data_dir, 'reference_data_filter_bad_data.in.fa')
metadata_tsv = os.path.join(data_dir, 'reference_data_filter_bad_data_metadata.in.tsv')
- expected_tsv = os.path.join(data_dir, 'reference_data_filter_bad_data_metadata.expected.tsv')
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- variants_only_fa=variants_only_fa,
- non_coding_fa=non_coding_fa,
- metadata_tsv=metadata_tsv
- )
-
- outprefix = 'tmp.test_filter_bad_variant_data'
- refdata._filter_bad_variant_data(outprefix, set(), set())
-
- self.assertTrue(filecmp.cmp(expected_tsv, outprefix + '.tsv'))
- self.assertTrue(filecmp.cmp(expected_variants_only_fa, outprefix + '.variants_only.fa'))
- self.assertTrue(filecmp.cmp(expected_presence_absence_fa, outprefix + '.presence_absence.fa'))
- self.assertTrue(filecmp.cmp(expected_non_coding_fa, outprefix + '.non_coding.fa'))
- os.unlink(outprefix + '.tsv')
- os.unlink(outprefix + '.variants_only.fa')
- os.unlink(outprefix + '.presence_absence.fa')
- os.unlink(outprefix + '.non_coding.fa')
- os.unlink(outprefix + '.log')
+ sequences, metadata = reference_data.ReferenceData._load_input_files_and_check_seq_names([fasta_in], [metadata_tsv])
+ tmp_prefix = 'tmp.test_filter_bad_variant_data'
+ reference_data.ReferenceData._filter_bad_variant_data(sequences, metadata, tmp_prefix, set())
+ expected_prefix = os.path.join(data_dir, 'reference_data_filter_bad_data.expected')
+
+ for suffix in ['check_metadata.log', 'check_metadata.tsv']:
+ expected = expected_prefix + '.' + suffix
+ got = tmp_prefix + '.' + suffix
+ self.assertTrue(filecmp.cmp(expected, got, shallow=False))
+ os.unlink(got)
+
+ expected_seqs = {}
+ pyfastaq.tasks.file_to_dict(os.path.join(data_dir, 'reference_data_filter_bad_data.expected.all.fa'), expected_seqs)
+ self.assertEqual(expected_seqs, sequences)
def test_try_to_get_gene_seq(self):
@@ -195,18 +241,20 @@ class TestReferenceData(unittest.TestCase):
def test_remove_bad_genes(self):
'''Test _remove_bad_genes'''
- presence_absence_fasta = os.path.join(data_dir, 'reference_data_remove_bad_genes.in.fa')
- refdata = reference_data.ReferenceData(presence_absence_fa=presence_absence_fasta, max_gene_length=99)
+ test_seq_dict = {}
+ fasta_file = os.path.join(data_dir, 'reference_data_remove_bad_genes.in.fa')
+ metadata_file = os.path.join(data_dir, 'reference_data_remove_bad_genes.in.tsv')
+ metadata = reference_data.ReferenceData._load_all_metadata_tsvs([metadata_file])
+ pyfastaq.tasks.file_to_dict(fasta_file, test_seq_dict)
tmp_log = 'tmp.test_remove_bad_genes.log'
-
expected_removed = {'g1', 'g2', 'g3', 'g4'}
- got_removed = refdata._remove_bad_genes(refdata.seq_dicts['presence_absence'], tmp_log)
+ got_removed = reference_data.ReferenceData._remove_bad_genes(test_seq_dict, metadata, tmp_log, min_gene_length=6, max_gene_length=99)
self.assertEqual(expected_removed, got_removed)
-
expected_dict = {
- 'g5': pyfastaq.sequences.Fasta('g5', 'ATGCCTTAA')
+ 'g5': pyfastaq.sequences.Fasta('g5', 'ATGCCTTAA'),
+ 'noncoding1': pyfastaq.sequences.Fasta('noncoding1', 'AAAAAAAAAAAAAAAAAAAAAAA')
}
- self.assertEqual(expected_dict, refdata.seq_dicts['presence_absence'])
+ self.assertEqual(expected_dict, test_seq_dict)
expected_log = os.path.join(data_dir, 'reference_data_test_remove_bad_genes.log')
self.assertTrue(filecmp.cmp(expected_log, tmp_log, shallow=False))
os.unlink(tmp_log)
@@ -245,52 +293,40 @@ class TestReferenceData(unittest.TestCase):
self.assertEqual(expected, got)
- def test_rename_names_in_seq_dicts(self):
- '''Test _rename_names_in_seq_dicts'''
+ def test_rename_names_in_seq_dict(self):
+ '''Test _rename_names_in_seq_dict'''
+ original_seqs = {
+ 'pa abc': pyfastaq.sequences.Fasta('pa abc', 'AAAA'),
+ 'pa 1': pyfastaq.sequences.Fasta('pa 1', 'CCC'),
+ 'vo:': pyfastaq.sequences.Fasta('vo:', 'GGG'),
+ 'nonc': pyfastaq.sequences.Fasta('nonc', 'TTT'),
+ }
rename_dict = {
'pa abc': 'pa',
'pa 1': 'pa_1',
'vo:': 'vo_',
}
- seqs_dict = {
- 'presence_absence': {
- 'pa abc': pyfastaq.sequences.Fasta('pa abc', 'AAAA'),
- 'pa 1': pyfastaq.sequences.Fasta('pa 1', 'CCC'),
- },
- 'variants_only': {
- 'vo:': pyfastaq.sequences.Fasta('vo:', 'GGG'),
- },
- 'non_coding': {
- 'nonc': pyfastaq.sequences.Fasta('nonc', 'TTT'),
- }
- }
-
- got = reference_data.ReferenceData._rename_names_in_seq_dicts(seqs_dict, rename_dict)
expected = {
- 'presence_absence': {
- 'pa': pyfastaq.sequences.Fasta('pa', 'AAAA'),
- 'pa_1': pyfastaq.sequences.Fasta('pa_1', 'CCC'),
- },
- 'variants_only': {
- 'vo_': pyfastaq.sequences.Fasta('vo_', 'GGG'),
- },
- 'non_coding': {
- 'nonc': pyfastaq.sequences.Fasta('nonc', 'TTT'),
- }
+ 'pa': pyfastaq.sequences.Fasta('pa', 'AAAA'),
+ 'pa_1': pyfastaq.sequences.Fasta('pa_1', 'CCC'),
+ 'vo_': pyfastaq.sequences.Fasta('vo_', 'GGG'),
+ 'nonc': pyfastaq.sequences.Fasta('nonc', 'TTT'),
}
- self.assertEqual(expected, seqs_dict)
+
+ got = reference_data.ReferenceData._rename_names_in_seq_dict(original_seqs, rename_dict)
+ self.assertEqual(expected, got)
def test_rename_metadata_set(self):
'''Test _rename_metadata_set'''
metaset = {
- sequence_metadata.SequenceMetadata('foo 1\t.\t.\t.\tdescription'),
- sequence_metadata.SequenceMetadata('foo 1\tp\tI42L\t.\tspam eggs')
+ sequence_metadata.SequenceMetadata('foo 1\t1\t0\t.\t.\tdescription'),
+ sequence_metadata.SequenceMetadata('foo 1\t1\t0\tI42L\t.\tspam eggs')
}
expected = {
- sequence_metadata.SequenceMetadata('new_name\t.\t.\t.\tdescription'),
- sequence_metadata.SequenceMetadata('new_name\tp\tI42L\t.\tspam eggs')
+ sequence_metadata.SequenceMetadata('new_name\t1\t0\t.\t.\tdescription'),
+ sequence_metadata.SequenceMetadata('new_name\t1\t0\tI42L\t.\tspam eggs')
}
got = reference_data.ReferenceData._rename_metadata_set(metaset, 'new_name')
self.assertEqual(expected, got)
@@ -298,15 +334,15 @@ class TestReferenceData(unittest.TestCase):
def test_rename_names_in_metadata(self):
'''Test _rename_names_in_metadata'''
- meta1 = sequence_metadata.SequenceMetadata('gene1\tn\tA42G\t.\tfree text')
- meta2 = sequence_metadata.SequenceMetadata('gene1\tn\tA42T\t.\tfree text2')
- meta3 = sequence_metadata.SequenceMetadata('gene1\t.\t.\t.\tfree text3')
- meta4 = sequence_metadata.SequenceMetadata('gene1\tn\tG13T\t.\tconfers killer rabbit resistance')
- meta5 = sequence_metadata.SequenceMetadata("gene2\tp\tI42L\t.\tremoves tardigrade's space-living capability")
- meta1rename = sequence_metadata.SequenceMetadata('new_gene1\tn\tA42G\t.\tfree text')
- meta2rename = sequence_metadata.SequenceMetadata('new_gene1\tn\tA42T\t.\tfree text2')
- meta3rename = sequence_metadata.SequenceMetadata('new_gene1\t.\t.\t.\tfree text3')
- meta4rename = sequence_metadata.SequenceMetadata('new_gene1\tn\tG13T\t.\tconfers killer rabbit resistance')
+ meta1 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA42G\t.\tfree text')
+ meta2 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tA42T\t.\tfree text2')
+ meta3 = sequence_metadata.SequenceMetadata('gene1\t0\t0\t.\t.\tfree text3')
+ meta4 = sequence_metadata.SequenceMetadata('gene1\t0\t0\tG13T\t.\tconfers killer rabbit resistance')
+ meta5 = sequence_metadata.SequenceMetadata("gene2\t1\t0\tI42L\t.\tremoves tardigrade's space-living capability")
+ meta1rename = sequence_metadata.SequenceMetadata('new_gene1\t0\t0\tA42G\t.\tfree text')
+ meta2rename = sequence_metadata.SequenceMetadata('new_gene1\t0\t0\tA42T\t.\tfree text2')
+ meta3rename = sequence_metadata.SequenceMetadata('new_gene1\t0\t0\t.\t.\tfree text3')
+ meta4rename = sequence_metadata.SequenceMetadata('new_gene1\t0\t0\tG13T\t.\tconfers killer rabbit resistance')
metadata = {
'gene1': {
@@ -341,106 +377,71 @@ class TestReferenceData(unittest.TestCase):
def test_rename_sequences(self):
'''Test rename_sequences'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_rename_sequences.presence_absence.fa')
- variants_only_fa = os.path.join(data_dir, 'reference_data_rename_sequences.variants_only.fa')
- noncoding_fa = os.path.join(data_dir, 'reference_data_rename_sequences.noncoding.fa')
- metadata_tsv = os.path.join(data_dir, 'reference_data_rename_sequences_metadata.tsv')
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- variants_only_fa=variants_only_fa,
- non_coding_fa=noncoding_fa,
- metadata_tsv=metadata_tsv
- )
+ fasta_in = os.path.join(data_dir, 'reference_data_rename_sequences.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_rename_sequences_metadata.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tmp_out = 'tmp.test_rename_sequences.out'
refdata.rename_sequences(tmp_out)
expected_file = os.path.join(data_dir, 'reference_data_test_rename_sequences.out')
self.assertTrue(filecmp.cmp(expected_file, tmp_out, shallow=False))
os.unlink(tmp_out)
- meta1 = sequence_metadata.SequenceMetadata('noncoding1\t.\t.\t.\toriginal name "noncoding1"')
- meta2 = sequence_metadata.SequenceMetadata('noncoding1_1\t.\t.\t.\toriginal name "noncoding1 blah"')
- meta3 = sequence_metadata.SequenceMetadata('pres_abs1_2\t.\t.\t.\toriginal name "pres_abs1 foo bar spam eggs"')
- meta4 = sequence_metadata.SequenceMetadata('pres_abs1_1\t.\t.\t.\toriginal name "pres_abs1 blah"')
- meta5 = sequence_metadata.SequenceMetadata('pres_abs1\t.\t.\t.\toriginal name "pres\'abs1"')
- meta6 = sequence_metadata.SequenceMetadata('pres_abs2\t.\t.\t.\toriginal name "pres_abs2"')
- meta7 = sequence_metadata.SequenceMetadata('pres_abs3\t.\t.\t.\toriginal name "pres!abs3"')
- meta8 = sequence_metadata.SequenceMetadata('var_only1_2\t.\t.\t.\toriginal name "var_only1 hello"')
- meta9 = sequence_metadata.SequenceMetadata('var_only1\t.\t.\t.\toriginal name "var:only1 boo"')
- meta10 = sequence_metadata.SequenceMetadata('var_only1_1\t.\t.\t.\toriginal name "var_only1"')
- meta11 = sequence_metadata.SequenceMetadata('var_only2\t.\t.\t.\toriginal name "var_only2"')
+ meta1 = sequence_metadata.SequenceMetadata('noncoding1\t0\t0\t.\t.\toriginal name "noncoding1"')
+ meta2 = sequence_metadata.SequenceMetadata('noncoding1_1\t0\t0\t.\t.\toriginal name "noncoding1 blah"')
+ meta3 = sequence_metadata.SequenceMetadata('pres_abs1_2\t0\t0\t.\t.\toriginal name "pres_abs1 foo bar spam eggs"')
+ meta4 = sequence_metadata.SequenceMetadata('pres_abs1_1\t0\t0\t.\t.\toriginal name "pres_abs1 blah"')
+ meta5 = sequence_metadata.SequenceMetadata('pres_abs1\t0\t0\t.\t.\toriginal name "pres\'abs1"')
+ meta6 = sequence_metadata.SequenceMetadata('pres_abs2\t0\t0\t.\t.\toriginal name "pres_abs2"')
+ meta7 = sequence_metadata.SequenceMetadata('pres_abs3\t0\t0\t.\t.\toriginal name "pres!abs3"')
+ meta8 = sequence_metadata.SequenceMetadata('var_only1_2\t0\t0\t.\t.\toriginal name "var_only1 hello"')
+ meta9 = sequence_metadata.SequenceMetadata('var_only1\t0\t0\t.\t.\toriginal name "var:only1 boo"')
+ meta10 = sequence_metadata.SequenceMetadata('var_only1_1\t0\t0\t.\t.\toriginal name "var_only1"')
+ meta11 = sequence_metadata.SequenceMetadata('var_only2\t0\t0\t.\t.\toriginal name "var_only2"')
expected_meta = {
- 'noncoding1': {'n': {}, 'p': {}, '.': {meta1}},
- 'noncoding1_1': {'n': {}, 'p': {}, '.': {meta2}},
- 'pres_abs1_2': {'n': {}, 'p': {}, '.': {meta3}},
- 'pres_abs1_1': {'n': {}, 'p': {}, '.': {meta4}},
- 'pres_abs1': {'n': {}, 'p': {}, '.': {meta5}},
- 'pres_abs2': {'n': {}, 'p': {}, '.': {meta6}},
- 'pres_abs3': {'n': {}, 'p': {}, '.': {meta7}},
- 'var_only1_2': {'n': {}, 'p': {}, '.': {meta8}},
- 'var_only1': {'n': {}, 'p': {}, '.': {meta9}},
- 'var_only1_1': {'n': {}, 'p': {}, '.': {meta10}},
- 'var_only2': {'n': {}, 'p': {}, '.': {meta11}},
+ 'noncoding1': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta1}},
+ 'noncoding1_1': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta2}},
+ 'pres_abs1_2': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta3}},
+ 'pres_abs1_1': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta4}},
+ 'pres_abs1': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta5}},
+ 'pres_abs2': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta6}},
+ 'pres_abs3': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta7}},
+ 'var_only1_2': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta8}},
+ 'var_only1': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta9}},
+ 'var_only1_1': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta10}},
+ 'var_only2': {'seq_type': 'n', 'variant_only': False, 'n': {}, 'p': {}, '.': {meta11}},
}
self.assertEqual(expected_meta, refdata.metadata)
expected_seqs_dict = {
- 'non_coding': {
- 'noncoding1': pyfastaq.sequences.Fasta('noncoding1', 'AAAA'),
- 'noncoding1_1': pyfastaq.sequences.Fasta('noncoding1_1', 'CCCC'),
- },
- 'presence_absence': {
- 'pres_abs1_2': pyfastaq.sequences.Fasta('pres_abs1_2', 'ACGT'),
- 'pres_abs1_1': pyfastaq.sequences.Fasta('pres_abs1_1', 'AAAA'),
- 'pres_abs1': pyfastaq.sequences.Fasta('pres_abs1', 'CCCC'),
- 'pres_abs2': pyfastaq.sequences.Fasta('pres_abs2', 'TTTT'),
- 'pres_abs3': pyfastaq.sequences.Fasta('pres_abs3', 'GGGG'),
- },
- 'variants_only': {
- 'var_only1_2': pyfastaq.sequences.Fasta('var_only1_2', 'AAAA'),
- 'var_only1': pyfastaq.sequences.Fasta('var_only1', 'CCCC'),
- 'var_only1_1': pyfastaq.sequences.Fasta('var_only1_1', 'GGGG'),
- 'var_only2': pyfastaq.sequences.Fasta('var_only2', 'TTTT'),
- }
+ 'noncoding1': pyfastaq.sequences.Fasta('noncoding1', 'AAAA'),
+ 'noncoding1_1': pyfastaq.sequences.Fasta('noncoding1_1', 'CCCC'),
+ 'pres_abs1_2': pyfastaq.sequences.Fasta('pres_abs1_2', 'ACGT'),
+ 'pres_abs1_1': pyfastaq.sequences.Fasta('pres_abs1_1', 'AAAA'),
+ 'pres_abs1': pyfastaq.sequences.Fasta('pres_abs1', 'CCCC'),
+ 'pres_abs2': pyfastaq.sequences.Fasta('pres_abs2', 'TTTT'),
+ 'pres_abs3': pyfastaq.sequences.Fasta('pres_abs3', 'GGGG'),
+ 'var_only1_2': pyfastaq.sequences.Fasta('var_only1_2', 'AAAA'),
+ 'var_only1': pyfastaq.sequences.Fasta('var_only1', 'CCCC'),
+ 'var_only1_1': pyfastaq.sequences.Fasta('var_only1_1', 'GGGG'),
+ 'var_only2': pyfastaq.sequences.Fasta('var_only2', 'TTTT'),
}
- self.assertEqual(expected_seqs_dict, refdata.seq_dicts)
-
-
- def test_make_catted_fasta(self):
- '''Test make_catted_fasta'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_make_catted_fasta.presence_absence.fa')
- variants_only_fa = os.path.join(data_dir, 'reference_data_make_catted_fasta.variants_only.fa')
- noncoding_fa = os.path.join(data_dir, 'reference_data_make_catted_fasta.noncoding.fa')
- expected_fa = os.path.join(data_dir, 'reference_data_make_catted_fasta.expected.fa')
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- variants_only_fa=variants_only_fa,
- non_coding_fa=noncoding_fa
- )
- tmp_out = 'tmp.test.make_catted_fasta.out.fa'
- refdata.make_catted_fasta(tmp_out)
- self.assertTrue(filecmp.cmp(expected_fa, tmp_out, shallow=False))
- os.unlink(tmp_out)
+ self.assertEqual(expected_seqs_dict, refdata.sequences)
def test_sequence_type(self):
'''Test sequence_type'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_sequence_type.presence_absence.fa')
- variants_only_fa = os.path.join(data_dir, 'reference_data_sequence_type.variants_only.fa')
- noncoding_fa = os.path.join(data_dir, 'reference_data_sequence_type.noncoding.fa')
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- variants_only_fa=variants_only_fa,
- non_coding_fa=noncoding_fa
- )
+ fasta_in = os.path.join(data_dir, 'reference_data_sequence_type.in.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_sequence_type.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
tests = [
- ('pa', 'presence_absence'),
- ('var_only', 'variants_only'),
- ('noncoding', 'non_coding'),
- ('not_there', None)
+ ('gene', ('p', False)),
+ ('gene.var_only', ('p', True)),
+ ('noncoding', ('n', False)),
+ ('noncoding.var_only', ('n', True)),
]
for name, expected in tests:
@@ -449,54 +450,36 @@ class TestReferenceData(unittest.TestCase):
def test_sequence(self):
'''Test sequence'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_sequence.presence_absence.fa')
- expected = pyfastaq.sequences.Fasta('pa', 'ATGTTTTAA')
- refdata = reference_data.ReferenceData(presence_absence_fa=presence_absence_fa)
- self.assertEqual(expected, refdata.sequence('pa'))
-
-
- def test_sequence_length(self):
- '''Test sequence_length'''
- presence_absence_fa = os.path.join(data_dir, 'reference_data_sequence_length.presence_absence.fa')
- refdata = reference_data.ReferenceData(presence_absence_fa=presence_absence_fa)
- self.assertEqual(9, refdata.sequence_length('pa'))
+ fasta_in = os.path.join(data_dir, 'reference_data_sequence.in.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_sequence.in.tsv')
+ expected = pyfastaq.sequences.Fasta('seq1', 'ATGTTTTAA')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
+ self.assertEqual(expected, refdata.sequence('seq1'))
def test_all_non_wild_type_variants(self):
'''Test all_non_wild_type_variants'''
tsv_file = os.path.join(data_dir, 'reference_data_test_all_non_wild_type_variants.tsv')
- presence_absence_fa = os.path.join(data_dir, 'reference_data_test_all_non_wild_type_variants.ref.pres_abs.fa')
- variants_only_fa = os.path.join(data_dir, 'reference_data_test_all_non_wild_type_variants.ref.var_only.fa')
- noncoding_fa = os.path.join(data_dir, 'reference_data_test_all_non_wild_type_variants.ref.noncoding.fa')
-
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- variants_only_fa=variants_only_fa,
- non_coding_fa=noncoding_fa,
- metadata_tsv=tsv_file
- )
-
- v1 = sequence_metadata.SequenceMetadata('var_only_gene\tn\tA8T\t.\tref has wild type A')
- v2 = sequence_metadata.SequenceMetadata('var_only_gene\tn\tG9C\t.\tref has variant C instead of G')
- v3 = sequence_metadata.SequenceMetadata('var_only_gene\tp\tP3Q\t.\tref has wild type P')
- v4 = sequence_metadata.SequenceMetadata('var_only_gene\tp\tG4I\t.\tref has wild type F')
- v5 = sequence_metadata.SequenceMetadata('var_only_gene\tp\tI5V\t.\tref has variant V instead of I')
- v6 = sequence_metadata.SequenceMetadata('var_only_gene\tp\tF6I\t.\tref has wild type F')
- p1 = sequence_metadata.SequenceMetadata('presence_absence_gene\tn\tA4G\t.\tref has wild type A')
- p2 = sequence_metadata.SequenceMetadata('presence_absence_gene\tn\tA6C\t.\tref has variant C instead of A')
- p3 = sequence_metadata.SequenceMetadata('presence_absence_gene\tp\tN2I\t.\tref has wild type N')
- p4 = sequence_metadata.SequenceMetadata('presence_absence_gene\tp\tA4G\t.\tref has variant G instead of A')
- n1 = sequence_metadata.SequenceMetadata('non_coding\tn\tA2C\t.\tref has wild type A')
- n2 = sequence_metadata.SequenceMetadata('non_coding\tn\tC4T\t.\tref has variant T instead of C')
+ fasta_in = os.path.join(data_dir, 'reference_data_test_all_non_wild_type_variants.ref.fa')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_file])
+
+ v1 = sequence_metadata.SequenceMetadata('var_only_gene\t1\t1\tP3Q\t.\tref has wild type P')
+ v2 = sequence_metadata.SequenceMetadata('var_only_gene\t1\t1\tG4I\t.\tref has wild type F')
+ v3 = sequence_metadata.SequenceMetadata('var_only_gene\t1\t1\tI5V\t.\tref has variant V instead of I')
+ v4 = sequence_metadata.SequenceMetadata('var_only_gene\t1\t1\tF6I\t.\tref has wild type F')
+ p1 = sequence_metadata.SequenceMetadata('presence_absence_gene\t1\t0\tN2I\t.\tref has wild type N')
+ p2 = sequence_metadata.SequenceMetadata('presence_absence_gene\t1\t0\tA4G\t.\tref has variant G instead of A')
+ n1 = sequence_metadata.SequenceMetadata('non_coding\t0\t0\tA2C\t.\tref has wild type A')
+ n2 = sequence_metadata.SequenceMetadata('non_coding\t0\t0\tC4T\t.\tref has variant T instead of C')
var_only_expected = {
- 'n': {7: {v1}, 8: {v2}},
- 'p': {2: {v3}, 3: {v4}, 4: {v5}, 5: {v6}}
+ 'n': {},
+ 'p': {2: {v1}, 3: {v2}, 4: {v3}, 5: {v4}}
}
pres_abs_expected = {
- 'n': {3: {p1}, 5: {p2}},
- 'p': {1: {p3}, 3: {p4}},
+ 'n': {},
+ 'p': {1: {p1}, 3: {p2}},
}
non_coding_expected = {
@@ -513,16 +496,12 @@ class TestReferenceData(unittest.TestCase):
def test_write_cluster_allocation_file(self):
'''Test write_cluster_allocation_file'''
clusters = {
- 'presence_absence': {
- 'seq1': {'seq1', 'seq2'},
- 'seq3': {'seq3', 'seq4', 'seq5'},
- 'seq6': {'seq6'}
- },
- 'non_coding' : {
- 'seq10': {'seq42'}
- },
- 'variants_only': None
+ '0': {'cluster0.1', 'cluster0.2'},
+ '1': {'cluster1.1', 'cluster1.2'},
+ '11': {'cluster11.1', 'cluster11.2'},
+ '2': {'cluster2.1'}
}
+
tmpfile = 'tmp.test_write_cluster_allocation_file.out'
reference_data.ReferenceData.write_cluster_allocation_file(clusters, tmpfile)
expected_file = os.path.join(data_dir, 'reference_data_test_write_cluster_allocation_file.expected')
@@ -532,144 +511,99 @@ class TestReferenceData(unittest.TestCase):
def test_cluster_with_cdhit(self):
'''Test cluster_with_cd_hit'''
- inprefix = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit')
- presence_absence_fa = inprefix + '.presence_absence.fa'
- non_coding_fa = inprefix + '.non_coding.fa'
-
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- non_coding_fa=non_coding_fa,
- )
-
+ fasta_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit.in.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
outprefix = 'tmp.test_cluster_with_cdhit'
- expected = {
- 'non_coding': {
- 'noncoding1.n': {'noncoding1'}
- },
- 'presence_absence': {
- 'presence_absence1.p': {'presence_absence1', 'presence_absence2'},
- 'presence_absence3.p': {'presence_absence4', 'presence_absence3'}
- },
- 'variants_only': None,
+ expected_clusters = {
+ '0': {'noncoding1'},
+ '1': {'presence_absence1', 'presence_absence2'},
+ '2': {'presence_absence3', 'presence_absence4'},
}
- got = refdata.cluster_with_cdhit(inprefix, outprefix)
- self.assertEqual(expected, got)
- expected_seqs = {}
- expected_cluster_reps_fa = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit.expected_representatives.fa')
- pyfastaq.tasks.file_to_dict(expected_cluster_reps_fa, expected_seqs)
- got_seqs = {}
- pyfastaq.tasks.file_to_dict(outprefix + '.cluster_representatives.fa', got_seqs)
- self.assertEqual(expected_seqs, got_seqs)
+ got_clusters = refdata.cluster_with_cdhit(outprefix)
+ self.assertEqual(expected_clusters, got_clusters)
- expected_clusters_file = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit.clusters.tsv')
+ expected_clusters_file = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit.expected.clusters.tsv')
got_clusters_file = outprefix + '.clusters.tsv'
self.assertTrue(filecmp.cmp(expected_clusters_file, got_clusters_file, shallow=False))
os.unlink(got_clusters_file)
- os.unlink(outprefix + '.cluster_representatives.fa')
- os.unlink(outprefix + '.non_coding.cdhit')
- os.unlink(outprefix + '.presence_absence.cdhit')
+ os.unlink(outprefix + '.all.fa')
+ os.unlink(outprefix + '.gene.fa')
+ os.unlink(outprefix + '.gene.varonly.fa')
+ os.unlink(outprefix + '.noncoding.fa')
+ os.unlink(outprefix + '.noncoding.varonly.fa')
def test_cluster_with_cdhit_clusters_in_file(self):
'''Test cluster_with_cd_hit clusters from file'''
- inprefix = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_clusters_in_file')
- presence_absence_fa = inprefix + '.presence_absence.fa'
- non_coding_fa = inprefix + '.non_coding.fa'
- clusters_file = inprefix + '.clusters'
-
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- non_coding_fa=non_coding_fa,
- )
-
+ fasta_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_clusters_in_file.in.fa')
+ meta_tsv_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_clusters_in_file.in.meta.tsv')
+ cluster_tsv_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_clusters_in_file.in.clusters.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [meta_tsv_in])
outprefix = 'tmp.test_cluster_with_cdhit_clusters_in_file'
- expected = {
- 'non_coding': {
- 'noncoding1.n': {'noncoding1'},
- 'noncoding2.n': {'noncoding2'}
- },
- 'presence_absence': {
- 'presence_absence1.p': {'presence_absence1', 'presence_absence3', 'presence_absence4'},
- 'presence_absence2.p': {'presence_absence2'}
- },
- 'variants_only': None,
+ expected_clusters = {
+ '0': {'presence_absence1', 'presence_absence3', 'presence_absence4'},
+ '1': {'presence_absence2'},
+ '2': {'noncoding1'},
+ '3': {'noncoding2'},
}
- got = refdata.cluster_with_cdhit(inprefix, outprefix, clusters_file=clusters_file)
- self.assertEqual(expected, got)
+ got_clusters = refdata.cluster_with_cdhit(outprefix, clusters_file=cluster_tsv_in)
+ self.assertEqual(expected_clusters, got_clusters)
- expected_cluster_reps_fa = inprefix + '.expected_representatives.fa'
- expected_seqs = {}
- pyfastaq.tasks.file_to_dict(expected_cluster_reps_fa, expected_seqs)
- got_seqs = {}
- pyfastaq.tasks.file_to_dict(outprefix + '.cluster_representatives.fa', got_seqs)
- self.assertEqual(expected_seqs, got_seqs)
-
- expected_clusters_file = inprefix + '.clusters.tsv'
+ expected_clusters_file = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_clusters_in_file.expected.clusters.tsv')
got_clusters_file = outprefix + '.clusters.tsv'
self.assertTrue(filecmp.cmp(expected_clusters_file, got_clusters_file, shallow=False))
os.unlink(got_clusters_file)
- os.unlink(outprefix + '.cluster_representatives.fa')
- os.unlink(outprefix + '.non_coding.cdhit')
- os.unlink(outprefix + '.presence_absence.cdhit')
-
-
- def test_cluster_with_cdhit_clusters_in_file(self):
- '''Test cluster_with_cd_hit clusters from file'''
- inprefix = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_nocluster')
- presence_absence_fa = inprefix + '.presence_absence.fa'
- non_coding_fa = inprefix + '.non_coding.fa'
- clusters_file = inprefix + '.clusters'
-
- refdata = reference_data.ReferenceData(
- presence_absence_fa=presence_absence_fa,
- non_coding_fa=non_coding_fa,
- )
-
+ os.unlink(outprefix + '.all.fa')
+ os.unlink(outprefix + '.gene.fa')
+ os.unlink(outprefix + '.gene.varonly.fa')
+ os.unlink(outprefix + '.noncoding.fa')
+ os.unlink(outprefix + '.noncoding.varonly.fa')
+
+
+ def test_cluster_with_cdhit_nocluster(self):
+ '''Test cluster_with_cd_hit do not run cdhit'''
+ fasta_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_nocluster.in.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_nocluster.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
outprefix = 'tmp.test_cluster_with_cdhit_nocluster'
- expected = {
- 'non_coding': {
- 'noncoding1.n': {'noncoding1'},
- 'noncoding2.n': {'noncoding2'}
- },
- 'presence_absence': {
- 'presence_absence1.p': {'presence_absence1'},
- 'presence_absence2.p': {'presence_absence2'},
- 'presence_absence3.p': {'presence_absence3'},
- 'presence_absence4.p': {'presence_absence4'},
- },
- 'variants_only': None,
+ expected_clusters = {
+ '0': {'noncoding1'},
+ '1': {'noncoding2'},
+ '2': {'presence_absence1'},
+ '3': {'presence_absence2'},
+ '4': {'presence_absence3'},
+ '5': {'presence_absence4'},
}
- got = refdata.cluster_with_cdhit(inprefix, outprefix, nocluster=True)
- self.assertEqual(expected, got)
+ got_clusters = refdata.cluster_with_cdhit(outprefix, nocluster=True)
+ self.assertEqual(expected_clusters, got_clusters)
- expected_cluster_reps_fa = inprefix + '.expected_representatives.fa'
- expected_seqs = {}
- pyfastaq.tasks.file_to_dict(expected_cluster_reps_fa, expected_seqs)
- got_seqs = {}
- pyfastaq.tasks.file_to_dict(outprefix + '.cluster_representatives.fa', got_seqs)
- self.assertEqual(expected_seqs, got_seqs)
-
- expected_clusters_file = inprefix + '.clusters.tsv'
+ expected_clusters_file = os.path.join(data_dir, 'reference_data_test_cluster_with_cdhit_nocluster.expected.clusters.tsv')
got_clusters_file = outprefix + '.clusters.tsv'
self.assertTrue(filecmp.cmp(expected_clusters_file, got_clusters_file, shallow=False))
os.unlink(got_clusters_file)
- os.unlink(outprefix + '.cluster_representatives.fa')
- os.unlink(outprefix + '.non_coding.cdhit')
- os.unlink(outprefix + '.presence_absence.cdhit')
+ os.unlink(outprefix + '.all.fa')
+ os.unlink(outprefix + '.gene.fa')
+ os.unlink(outprefix + '.gene.varonly.fa')
+ os.unlink(outprefix + '.noncoding.fa')
+ os.unlink(outprefix + '.noncoding.varonly.fa')
+
def test_write_seqs_to_fasta(self):
'''Test write_seqs_to_fasta'''
- refdata = reference_data.ReferenceData(presence_absence_fa=os.path.join(data_dir, 'reference_data_test_write_seqs_to_fasta.in.fa'))
+ fasta_in = os.path.join(data_dir, 'reference_data_test_write_seqs_to_fasta.in.fa')
+ tsv_in = os.path.join(data_dir, 'reference_data_test_write_seqs_to_fasta.in.tsv')
+ refdata = reference_data.ReferenceData([fasta_in], [tsv_in])
expected_outfile = os.path.join(data_dir, 'reference_data_test_write_seqs_to_fasta.expected.fa')
tmpfile = 'tmp.test.reference_data.write_seqs_to_fasta.out.fa'
refdata.write_seqs_to_fasta(tmpfile, {'seq1', 'seq4', 'seq5'})
diff --git a/ariba/tests/report_filter_test.py b/ariba/tests/report_filter_test.py
index 7725de6..a598a15 100644
--- a/ariba/tests/report_filter_test.py
+++ b/ariba/tests/report_filter_test.py
@@ -1,7 +1,6 @@
import unittest
import os
import filecmp
-import pyfastaq
from ariba import flag, report_filter, report
modules_dir = os.path.dirname(os.path.abspath(report_filter.__file__))
@@ -13,10 +12,10 @@ class TestReportFilter(unittest.TestCase):
'''test __init__ on good input file'''
infile = os.path.join(data_dir, 'report_filter_test_init_good.tsv')
rf = report_filter.ReportFilter(infile=infile)
- line1 = '\t'.join(['cluster1', 'non_coding', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '10.5', '1', 'SNP', 'n', 'C42T', '0', '.', '.', '42', '42', 'C', '142', '142', 'C', '500', '.', '500', 'a:n:C42T:id1:foo', 'free_text'])
- line2 = '\t'.join(['cluster1', 'non_coding', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '10.5', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id2:bar', 'free_text2'])
- line3 = '\t'.join(['cluster1', 'non_coding', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.2', '1300', '12.4', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id3:spam', 'free_text3'])
- line4 = '\t'.join(['cluster2', 'variants_only', '179', '20000', 'cluster2', '1042', '1042', '42.42', 'cluster2.scaffold.1', '1442', '20.2', '1', 'SNP', 'p', 'I42L', '1', 'I42L', 'NONSYN', '112', '112', 'C', '442', '442', 'T', '300', '.', '290', 'a:v:I42L:id4:eggs', 'free_text3'])
+ line1 = '\t'.join(['cluster1', '0', '0', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '10.5', '1', 'SNP', 'n', 'C42T', '0', '.', '.', '42', '42', 'C', '142', '142', 'C', '500', '.', '500', 'a:n:C42T:id1:foo', 'free_text'])
+ line2 = '\t'.join(['cluster1', '0', '0', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '10.5', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id2:bar', 'free_text2'])
+ line3 = '\t'.join(['cluster1', '0', '0', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.2', '1300', '12.4', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id3:spam', 'free_text3'])
+ line4 = '\t'.join(['cluster2', '1', '0', '179', '20000', 'cluster2', '1042', '1042', '42.42', 'cluster2.scaffold.1', '1442', '20.2', '1', 'SNP', 'p', 'I42L', '1', 'I42L', 'NONSYN', '112', '112', 'C', '442', '442', 'T', '300', '.', '290', 'a:v:I42L:id4:eggs', 'free_text3'])
expected = {
'cluster1': {
@@ -35,14 +34,15 @@ class TestReportFilter(unittest.TestCase):
'''test __init__ on bad input file'''
infile = os.path.join(data_dir, 'report_filter_test_init_bad.tsv')
with self.assertRaises(report_filter.Error):
- rf = report_filter.ReportFilter(infile=infile)
+ report_filter.ReportFilter(infile=infile)
def test_report_line_to_dict(self):
- line = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t99.42\tcluster1.scaffold.1\t999\t23.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\ta:n:C42T:id1:foo\tfree text'
+ line = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t99.42\tcluster1.scaffold.1\t999\t23.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\ta:n:C42T:id1:foo\tfree text'
expected = {
'ref_name': 'cluster1',
- 'ref_type': 'non_coding',
+ 'gene': '0',
+ 'var_only': '0',
'flag': flag.Flag(27),
'reads': 10000,
'cluster': 'cluster1',
@@ -82,7 +82,8 @@ class TestReportFilter(unittest.TestCase):
'''Test _dict_to_report_line'''
report_dict = {
'ref_name': 'cluster1',
- 'ref_type': 'non_coding',
+ 'gene': '0',
+ 'var_only': '0',
'flag': flag.Flag(27),
'reads': 10000,
'cluster': 'cluster1',
@@ -112,7 +113,7 @@ class TestReportFilter(unittest.TestCase):
'free_text': 'free text',
}
- expected = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t99.42\tcluster1.scaffold.1\t1300\t42.4\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\ta:n:C42T:id1:foo\tfree text'
+ expected = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t99.42\tcluster1.scaffold.1\t1300\t42.4\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\ta:n:C42T:id1:foo\tfree text'
self.assertEqual(expected, report_filter.ReportFilter._dict_to_report_line(report_dict))
@@ -120,10 +121,10 @@ class TestReportFilter(unittest.TestCase):
good_infile = os.path.join(data_dir, 'report_filter_test_load_report_good.tsv')
bad_infile = os.path.join(data_dir, 'report_filter_test_load_report_bad.tsv')
- line1 = '\t'.join(['cluster1', 'non_coding', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '12.2', '1', 'SNP', 'n', 'C42T', '0', '.', '.', '42', '42', 'C', '142', '142', 'C', '500', '.', '500', 'a:n:C42T:id1:foo', 'free_text'])
- line2 = '\t'.join(['cluster1', 'non_coding', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '12.2', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id2:bar', 'free_text2'])
- line3 = '\t'.join(['cluster1', 'non_coding', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.2', '1300', '22.2', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id3:spam', 'free_text3'])
- line4 = '\t'.join(['cluster2', 'variants_only', '179', '20000', 'cluster2', '1042', '1042', '42.42', 'cluster2.scaffold.1', '1442', '33.3', '1', 'SNP', 'p', 'I42L', '1', 'I42L', 'NONSYN', '112', '112', 'C', '442', '442', 'T', '300', '.', '290', 'a:v:I42L:id4:eggs', 'free_text3'])
+ line1 = '\t'.join(['cluster1', '0', '0', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '12.2', '1', 'SNP', 'n', 'C42T', '0', '.', '.', '42', '42', 'C', '142', '142', 'C', '500', '.', '500', 'a:n:C42T:id1:foo', 'free_text'])
+ line2 = '\t'.join(['cluster1', '0', '0', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.1', '1300', '12.2', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id2:bar', 'free_text2'])
+ line3 = '\t'.join(['cluster1', '0', '0', '27', '10000', 'cluster1', '1000', '999', '99.42', 'cluster1.scaffold.2', '1300', '22.2', '1', 'SNP', 'n', 'A51G', '0', '.', '.', '51', '51', 'C', '151', '151', 'C', '542', '.', '542', 'a:n:A51G:id3:spam', 'free_text3'])
+ line4 = '\t'.join(['cluster2', '1', '1', '179', '20000', 'cluster2', '1042', '1042', '42.42', 'cluster2.scaffold.1', '1442', '33.3', '1', 'SNP', 'p', 'I42L', '1', 'I42L', 'NONSYN', '112', '112', 'C', '442', '442', 'T', '300', '.', '290', 'a:v:I42L:id4:eggs', 'free_text3'])
expected = {
'cluster1': {
@@ -180,9 +181,9 @@ class TestReportFilter(unittest.TestCase):
def test_report_dict_passes_essential_filters(self):
'''Test _report_dict_passes_essential_filters'''
- line1 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
- line2 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t0\t98.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
- line3 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line1 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line2 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t0\t98.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line3 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
tests = [
(report_filter.ReportFilter._report_line_to_dict(line1), True),
(report_filter.ReportFilter._report_line_to_dict(line2), False),
@@ -213,8 +214,8 @@ class TestReportFilter(unittest.TestCase):
def test_filter_list_of_dicts_all_fail(self):
'''Test _filter_list_of_dicts where all fail'''
rf = report_filter.ReportFilter()
- line1 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t88.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
- line2 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line1 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t88.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line2 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
dict1 = report_filter.ReportFilter._report_line_to_dict(line1)
dict2 = report_filter.ReportFilter._report_line_to_dict(line2)
got = rf._filter_list_of_dicts([dict1, dict2])
@@ -224,11 +225,11 @@ class TestReportFilter(unittest.TestCase):
def test_filter_list_of_dicts_with_essential(self):
'''Test _filter_list_of_dicts with an essential line but all others fail'''
rf = report_filter.ReportFilter(ignore_not_has_known_variant=True)
- line1 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
- line2 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line1 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line2 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t400\t12.2\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
dict1 = report_filter.ReportFilter._report_line_to_dict(line1)
dict2 = report_filter.ReportFilter._report_line_to_dict(line2)
- expected_line = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t400\t12.2\t' + '\t'.join(['.'] * 17) + '\tfree text'
+ expected_line = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t400\t12.2\t' + '\t'.join(['.'] * 17) + '\tfree text'
expected = [report_filter.ReportFilter._report_line_to_dict(expected_line)]
assert expected != [None]
got = rf._filter_list_of_dicts([dict1, dict2])
@@ -238,9 +239,9 @@ class TestReportFilter(unittest.TestCase):
def test_filter_list_of_dicts_with_pass(self):
'''Test _filter_list_of_dicts with a line that passes'''
rf = report_filter.ReportFilter(ignore_not_has_known_variant=True)
- line1 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t500\t12.1\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
- line2 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t500\t12.1\t1\tSNP\tn\tC46T\t1\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C46T\tfree text'
- line3 = 'cluster1\tnon_coding\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t500\t12.1\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line1 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t500\t12.1\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
+ line2 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t98.42\tcluster1.scaffold.1\t500\t12.1\t1\tSNP\tn\tC46T\t1\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C46T\tfree text'
+ line3 = 'cluster1\t0\t0\t27\t10000\tcluster1\t1000\t999\t78.42\tcluster1.scaffold.1\t500\t12.1\t1\tSNP\tn\tC42T\t0\t.\t.\t42\t42\tC\t142\t142\tC\t500\t.\t500\tDescription_of_variant C42T\tfree text'
dict1 = report_filter.ReportFilter._report_line_to_dict(line1)
dict2 = report_filter.ReportFilter._report_line_to_dict(line2)
dict3 = report_filter.ReportFilter._report_line_to_dict(line3)
@@ -251,9 +252,9 @@ class TestReportFilter(unittest.TestCase):
def test_remove_all_after_first_frameshift(self):
'''Test _remove_all_after_first_frameshift'''
self.assertEqual([], report_filter.ReportFilter._remove_all_after_first_frameshift([]))
- line1 = 'cluster1\tpresence_absence\t528\t1874\tcluster1\t1188\t1097\t92.43\tcluster1.scaffold.1\t2218\t42.42\t0\t.\tp\t.\t0\tE89G\tNONSYN\t65\t265\tA;A\t766\t766\tG;C\t88;90\t.;.\t87;90\t.\t.'
- line2 = 'cluster1\tpresence_absence\t528\t1874\tcluster1\t1188\t1097\t92.43\tcluster1.scaffold.1\t2218\t42.42\t0\t.\tp\t.\t0\tQ37fs\tFSHIFT\t109\t109\tA\t634\t634\t.\t67\t.\t67\t.\t.'
- line3 = 'cluster1\tpresence_absence\t528\t1874\tcluster1\t1188\t1097\t92.43\tcluster1.scaffold.1\t2218\t42.42\t0\t.\tp\t.\t0\tE89G\tNONSYN\t265\t265\tA;A\t766\t766\tG;C\t88;90\t.;.\t87;90\t.\t.'
+ line1 = 'cluster1\t1\t0\t528\t1874\tcluster1\t1188\t1097\t92.43\tcluster1.scaffold.1\t2218\t42.42\t0\t.\tp\t.\t0\tE89G\tNONSYN\t65\t265\tA;A\t766\t766\tG;C\t88;90\t.;.\t87;90\t.\t.'
+ line2 = 'cluster1\t1\t0\t528\t1874\tcluster1\t1188\t1097\t92.43\tcluster1.scaffold.1\t2218\t42.42\t0\t.\tp\t.\t0\tQ37fs\tFSHIFT\t109\t109\tA\t634\t634\t.\t67\t.\t67\t.\t.'
+ line3 = 'cluster1\t1\t0\t528\t1874\tcluster1\t1188\t1097\t92.43\tcluster1.scaffold.1\t2218\t42.42\t0\t.\tp\t.\t0\tE89G\tNONSYN\t265\t265\tA;A\t766\t766\tG;C\t88;90\t.;.\t87;90\t.\t.'
dict1 = report_filter.ReportFilter._report_line_to_dict(line1)
dict2 = report_filter.ReportFilter._report_line_to_dict(line2)
dict3 = report_filter.ReportFilter._report_line_to_dict(line3)
@@ -327,9 +328,9 @@ class TestReportFilter(unittest.TestCase):
'''Test run'''
infile = os.path.join(data_dir, 'report_filter_test_run.in.tsv')
expected_file = os.path.join(data_dir, 'report_filter_test_run.expected.tsv')
- tmpprefix = 'tmp.test.report_filter.run.out'
+ tmpfile = 'tmp.test.report_filter.run.out.tsv'
rf = report_filter.ReportFilter(infile=infile)
- rf.run(tmpprefix)
- self.assertTrue(filecmp.cmp(expected_file, tmpprefix + '.tsv', shallow=False))
- os.unlink(tmpprefix + '.tsv')
+ rf.run(tmpfile)
+ self.assertTrue(filecmp.cmp(expected_file, tmpfile, shallow=False))
+ os.unlink(tmpfile)
diff --git a/ariba/tests/samtools_variants_test.py b/ariba/tests/samtools_variants_test.py
index 5460cf8..ba82316 100644
--- a/ariba/tests/samtools_variants_test.py
+++ b/ariba/tests/samtools_variants_test.py
@@ -1,7 +1,6 @@
import unittest
import os
import pyfastaq
-import pymummer
from ariba import samtools_variants, external_progs
modules_dir = os.path.dirname(os.path.abspath(samtools_variants.__file__))
@@ -137,7 +136,6 @@ class TestSamtoolsVariants(unittest.TestCase):
'''test variants_in_coords'''
vcf_file = os.path.join(data_dir, 'samtools_variants_test_variants_in_coords.vcf')
- hit = ['1', '42', '1', '42', '42', '42', '100.00', '1000', '1000', '1', '1', 'gene', 'scaff1']
nucmer_hits = {
'scaff1': [pyfastaq.intervals.Interval(0, 41)]
}
diff --git a/ariba/tests/scaffold_graph_test.py b/ariba/tests/scaffold_graph_test.py
index ca916fc..827d5ee 100644
--- a/ariba/tests/scaffold_graph_test.py
+++ b/ariba/tests/scaffold_graph_test.py
@@ -1,6 +1,5 @@
import unittest
import os
-import copy
import filecmp
import pyfastaq
import pysam
@@ -45,7 +44,7 @@ class TestScaffoldGraph(unittest.TestCase):
g._make_graph(10)
self.assertEqual(len(g.contig_links), 0)
-
+
g._make_graph(1000)
self.assertEqual(len(g.contig_links), 1)
expected_contig_links = {
@@ -70,7 +69,7 @@ class TestScaffoldGraph(unittest.TestCase):
('ref1', 'ref2'): {'LR': 42, 'RL':41},
('ref2', 'ref3'): {'LR': 43, 'RL':42},
('ref3', 'ref4'): {'LR': 1, 'RL':2}
- }
+ }
g._remove_low_cov_links(42)
expected = {
@@ -114,11 +113,11 @@ class TestScaffoldGraph(unittest.TestCase):
link.Link(None, None, None, '\t'.join(['ref1', '100', 'R', '50', 'ref2', '200', 'L', '10']))
]
-
+
g.links[('ref1', 'ref2')].append(link.Link(None, None, None, '\t'.join(['ref1', '100', 'R', '50', 'ref2', '200', 'L', '10'])))
g.links[('ref1', 'ref2')].append(link.Link(None, None, None, '\t'.join(['ref1', '100', 'L', '50', 'ref2', '200', 'R', '10'])))
-
+
g.links[('ref3', 'ref4')] = [
link.Link(None, None, None, '\t'.join(['ref3', '100', 'R', '42', 'ref4', '200', 'L', '42']))
]
diff --git a/ariba/tests/sequence_metadata_test.py b/ariba/tests/sequence_metadata_test.py
index ed4fe47..9340a41 100644
--- a/ariba/tests/sequence_metadata_test.py
+++ b/ariba/tests/sequence_metadata_test.py
@@ -14,28 +14,32 @@ class TestSequenceMetadata(unittest.TestCase):
'only one column. There can NOT be only one\n',
'two\tcolumns is not enough\n',
'three\tcolumns\tis still not enough\n',
- 'four\tcolumns\tis\tis also not enough\n',
- 'six\tcolumns\tis\tone\ttoo\tmany\n',
+ 'four\tcolumns\tis\talso not enough\n',
+ 'five\tcolumns\tis\talso\tnot enough\n',
+ 'seven\tcolumns\tis\tone\tmore\tthan\nwe want',
]
for line in lines:
with self.assertRaises(sequence_metadata.Error):
sequence_metadata.SequenceMetadata(line)
- lines = [
- 'gene\tx\tI42L\tid\tfoo\n',
+ tests = [
+ ('gene\tx\t0\t.\t.\tfoo\n', sequence_metadata.Error),
+ ('gene\t1\t2\t.\t.\tfoo\n', sequence_metadata.Error),
+ ('gene\t1\t1\tI42\t.\tfoo\n', sequence_variant.Error),
]
- for line in lines:
- with self.assertRaises(sequence_variant.Error):
+ for line, err in tests:
+ with self.assertRaises(err):
sequence_metadata.SequenceMetadata(line)
def test_init_on_good_input(self):
'''test init ok on good input'''
- data = sequence_metadata.SequenceMetadata('gene\tn\tI42L\tid\tspam spam wonderful spam')
+ data = sequence_metadata.SequenceMetadata('gene\t1\t0\tI42L\tid\tspam spam wonderful spam')
self.assertEqual(data.name, 'gene')
- self.assertEqual(data.variant_type, 'n')
+ self.assertEqual(data.seq_type, 'p')
+ self.assertEqual(data.variant_only, False)
self.assertEqual(data.variant.wild_value, 'I')
self.assertEqual(data.variant.variant_value, 'L')
self.assertEqual(data.variant.identifier, 'id')
@@ -45,10 +49,10 @@ class TestSequenceMetadata(unittest.TestCase):
def test_str(self):
'''test __str__'''
lines = [
- 'gene1\tn\tA42G\tid1\tspam',
- 'gene2\t.\t.\t.\t.',
- 'gene3\t.\t.\t.\teggs',
- 'gene4\tp\tI42K\tid\tthis mutation kills tardigrades',
+ 'gene1\t1\t1\tA42G\tid1\tspam',
+ 'gene2\t0\t0\t.\t.\t.',
+ 'gene3\t0\t0\t.\t.\teggs',
+ 'gene4\t1\t0\tI42K\tid\tthis mutation kills tardigrades',
]
for line in lines:
@@ -58,11 +62,11 @@ class TestSequenceMetadata(unittest.TestCase):
def test_has_variant(self):
'''test has_variant'''
tests = [
- ('gene1\t.\t.\t.\t.', False),
- ('gene1\tn\tA2T\t.\t,', True),
- ('gene1\tn\tT2A\t.\t.', False),
- ('gene1\tp\tI2Y\t.\t.', True),
- ('gene1\tp\tY2I\t.\t.', False),
+ ('gene1\t0\t0\t.\t.\t.', False),
+ ('gene1\t0\t0\tA2T\t.\t,', True),
+ ('gene1\t0\t0\tT2A\t.\t.', False),
+ ('gene1\t1\t0\tI2Y\t.\t.', True),
+ ('gene1\t1\t0\tY2I\t.\t.', False),
]
seq = pyfastaq.sequences.Fasta('name', 'ATGTATTGCTGA') # translation: MYC*
@@ -75,10 +79,10 @@ class TestSequenceMetadata(unittest.TestCase):
def test_to_string(self):
'''test to_string'''
lines = [
- ('gene1', 'n', 'A42G', 'id1', 'spam'),
- ('gene2', '.', '.', '.', '.'),
- ('gene3', '.', '.', '.', 'eggs'),
- ('gene4', 'p', 'I42K', 'id', 'this mutation kills tardigrades'),
+ ('gene1', '0', '0', 'A42G', 'id1', 'spam'),
+ ('gene2', '0', '0', '.', '.', '.'),
+ ('gene3', '0', '0', '.', '.', 'eggs'),
+ ('gene4', '1', '0', 'I42K', 'id', 'this mutation kills tardigrades'),
]
for line in lines:
diff --git a/ariba/tests/sequence_variant_test.py b/ariba/tests/sequence_variant_test.py
index 1c19915..86567e1 100644
--- a/ariba/tests/sequence_variant_test.py
+++ b/ariba/tests/sequence_variant_test.py
@@ -21,7 +21,7 @@ class TestSequenceVariant(unittest.TestCase):
for var in bad_variants:
with self.assertRaises(sequence_variant.Error):
- v = sequence_variant.Variant('p', var, '.')
+ sequence_variant.Variant('p', var, '.')
def test_init_ok(self):
diff --git a/ariba/tests/summary_cluster_test.py b/ariba/tests/summary_cluster_test.py
index 4219af7..e3f2b26 100644
--- a/ariba/tests/summary_cluster_test.py
+++ b/ariba/tests/summary_cluster_test.py
@@ -1,6 +1,4 @@
import unittest
-import copy
-import filecmp
import os
from ariba import flag, summary_cluster
@@ -10,11 +8,12 @@ data_dir = os.path.join(modules_dir, 'tests', 'data')
class TestSummaryCluster(unittest.TestCase):
def test_line2dict(self):
'''Test _line2dict'''
- line = 'refname\treftype\t19\t78\tcluster\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:var_group1:ref has wild type, foo bar\tsome free text'
+ line = 'refname\t1\t0\t19\t78\tcluster\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:var_group1:ref has wild type, foo bar\tsome free text'
expected = {
'ref_name': 'refname',
- 'ref_type': 'reftype',
+ 'gene': '1',
+ 'var_only' : '0',
'flag': flag.Flag(19),
'reads': 78,
'cluster': 'cluster',
@@ -52,9 +51,9 @@ class TestSummaryCluster(unittest.TestCase):
'''Test add_data_dict'''
cluster = summary_cluster.SummaryCluster()
self.assertTrue(cluster.name is None)
- line1 = 'refname\treftype\t19\t78\tcluster\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
- line2 = 'refname\treftype\t19\t78\tcluster2\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id2:ref has wild type, foo bar\tsome free text'
- line3 = 'refname2\treftype\t19\t78\tcluster\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id3:ref has wild type, foo bar\tsome free text'
+ line1 = 'refname\t1\t0\t19\t78\tcluster\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
+ line2 = 'refname\t1\t0\t19\t78\tcluster2\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id2:ref has wild type, foo bar\tsome free text'
+ line3 = 'refname2\t1\t0\t19\t78\tcluster\t120\t120\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id3:ref has wild type, foo bar\tsome free text'
data_dict1 = summary_cluster.SummaryCluster.line2dict(line1)
data_dict2 = summary_cluster.SummaryCluster.line2dict(line2)
data_dict3 = summary_cluster.SummaryCluster.line2dict(line3)
@@ -72,9 +71,9 @@ class TestSummaryCluster(unittest.TestCase):
'''Test pc_id_of_longest'''
cluster = summary_cluster.SummaryCluster()
self.assertTrue(cluster.name is None)
- line1 = 'refname\treftype\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
- line2 = 'refname\treftype\t19\t78\tcluster\t120\t119\t98.20\tctg_name2\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
- line3 = 'refname\treftype\t19\t78\tcluster\t120\t114\t98.32\tctg_name3\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
+ line1 = 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
+ line2 = 'refname\t1\t0\t19\t78\tcluster\t120\t119\t98.20\tctg_name2\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
+ line3 = 'refname\t1\t0\t19\t78\tcluster\t120\t114\t98.32\tctg_name3\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
data_dict1 = summary_cluster.SummaryCluster.line2dict(line1)
data_dict2 = summary_cluster.SummaryCluster.line2dict(line2)
data_dict3 = summary_cluster.SummaryCluster.line2dict(line3)
@@ -86,35 +85,35 @@ class TestSummaryCluster(unittest.TestCase):
def test_to_cluster_summary_number(self):
'''Test _to_cluster_summary_assembled'''
- line = 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
+ line = 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text'
data_dict = summary_cluster.SummaryCluster.line2dict(line)
tests = [
- ('non_coding', 0, 'no'),
- ('non_coding', 64, 'no'),
- ('non_coding', 1024, 'no'),
- ('non_coding', 1, 'fragmented'),
- ('non_coding', 3, 'yes_nonunique'),
- ('non_coding', 19, 'yes'),
- ('non_coding', 23, 'yes_nonunique'),
- ('non_coding', 51, 'yes_nonunique'),
- ('non_coding', 147, 'yes_nonunique'),
- ('non_coding', 275, 'yes_nonunique'),
- ('presence_absence', 0, 'no'),
- ('presence_absence', 64, 'no'),
- ('presence_absence', 1024, 'no'),
- ('presence_absence', 1, 'fragmented'),
- ('presence_absence', 11, 'yes_nonunique'),
- ('presence_absence', 27, 'yes'),
- ('presence_absence', 29, 'fragmented'),
- ('presence_absence', 59, 'yes_nonunique'),
- ('presence_absence', 155, 'yes_nonunique'),
- ('presence_absence', 283, 'yes_nonunique'),
+ ('0', 0, 'no'),
+ ('0', 64, 'no'),
+ ('0', 1024, 'no'),
+ ('0', 1, 'fragmented'),
+ ('0', 3, 'yes_nonunique'),
+ ('0', 19, 'yes'),
+ ('0', 23, 'yes_nonunique'),
+ ('0', 51, 'yes_nonunique'),
+ ('0', 147, 'yes_nonunique'),
+ ('0', 275, 'yes_nonunique'),
+ ('1', 0, 'no'),
+ ('1', 64, 'no'),
+ ('1', 1024, 'no'),
+ ('1', 1, 'fragmented'),
+ ('1', 11, 'yes_nonunique'),
+ ('1', 27, 'yes'),
+ ('1', 29, 'fragmented'),
+ ('1', 59, 'yes_nonunique'),
+ ('1', 155, 'yes_nonunique'),
+ ('1', 283, 'yes_nonunique'),
]
- for seq_type, f, expected in tests:
+ for gene, f, expected in tests:
cluster = summary_cluster.SummaryCluster()
- data_dict['ref_type'] = seq_type
+ data_dict['gene'] = gene
data_dict['flag'] = flag.Flag(f)
cluster.add_data_dict(data_dict)
self.assertEqual(expected, cluster._to_cluster_summary_assembled())
@@ -123,11 +122,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_has_known_variant(self):
'''Test _has_known_variant'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
]
dicts = [summary_cluster.SummaryCluster.line2dict(x) for x in lines]
@@ -140,11 +139,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_has_any_known_variant(self):
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
]
expected = ['yes', 'no', 'no', 'no', 'no']
@@ -160,12 +159,12 @@ class TestSummaryCluster(unittest.TestCase):
def test_has_nonsynonymous(self):
'''Test _has_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
]
dicts = [summary_cluster.SummaryCluster.line2dict(x) for x in lines]
@@ -179,11 +178,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_has_any_nonsynonymous(self):
'''Test _has_any_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:N_ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:N_ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
]
expected = ['no', 'yes', 'no', 'yes', 'yes']
@@ -199,11 +198,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_has_novel_nonsynonymous(self):
'''Test _has_novel_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
]
dicts = [summary_cluster.SummaryCluster.line2dict(x) for x in lines]
@@ -217,11 +216,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_has_any_novel_nonsynonymous(self):
'''Test _has_any_novel_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
- 'refname\tpresence_absence\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\t.\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tMULTIPLE\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.',
+ 'refname\t1\t0\t528\t2814\tcluster\t1188\t1009\t90.49\tctg_name\t2470\t141.8\t0\t.\tp\t.\t0\t.\tINDELS\t594\t594\tC;T\t1195\t1195\t.;C\t207;204\t.;.\t207;204\t.\t.'
]
expected = ['no', 'no', 'yes', 'yes', 'yes']
@@ -237,11 +236,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_to_cluster_summary_has_known_nonsynonymous(self):
'''Test _to_cluster_summary_has_known_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\t.\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\t.\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
]
expected = ['yes', 'yes', 'no', 'no', 'no']
@@ -258,11 +257,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_to_cluster_summary_has_novel_nonsynonymous(self):
'''Test _to_cluster_summary_has_novel_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\t.\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\t.\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
]
expected = ['no', 'no', 'no', 'yes', 'yes']
@@ -279,11 +278,11 @@ class TestSummaryCluster(unittest.TestCase):
def test_to_cluster_summary_has_nonsynonymous(self):
'''Test _to_cluster_summary_has_nonsynonymous'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\t.\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\t.\tn\t.\t.\t.\tMULTIPLE\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
]
expected = ['no', 'yes', 'no', 'yes', 'yes']
@@ -341,42 +340,44 @@ class TestSummaryCluster(unittest.TestCase):
self.assertEqual(('ref', 'MULTIPLE', 'novel', None), summary_cluster.SummaryCluster._get_nonsynonymous_var(d))
- def test_has_resistance(self):
- '''Test _has_resistance'''
+ def test_has_match(self):
+ '''Test _has_match'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tvariants_only\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tvariants_only\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tvariants_only\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
]
- expected = ['yes', 'yes', 'yes', 'yes', 'yes', 'yes', 'no', 'no']
+ expected = ['yes', 'yes', 'yes', 'no', 'yes', 'yes', 'yes', 'yes', 'no', 'no']
for i in range(len(lines)):
data_dict = summary_cluster.SummaryCluster.line2dict(lines[i])
cluster = summary_cluster.SummaryCluster()
cluster.add_data_dict(data_dict)
for assembled_summary in ['yes', 'yes_nonunique']:
- self.assertEqual(expected[i], cluster._has_resistance(assembled_summary))
+ self.assertEqual(expected[i], cluster._has_match(assembled_summary))
for assembled_summary in ['no', 'fragmented']:
- self.assertEqual('no', cluster._has_resistance(assembled_summary))
+ self.assertEqual('no', cluster._has_match(assembled_summary))
def test_has_var_groups(self):
'''Test has_var_groups'''
lines = [
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
- 'refname\tnon_coding\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id2:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id3:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id4:ref has wild type, foo bar\tsome free text',
- 'refname\tpresence_absence\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id5:ref has wild type, foo bar\tsome free text',
- 'refname\tvariants_only\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id6:ref has wild type, foo bar\tsome free text',
- 'refname\tvariants_only\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id7:ref has wild type, foo bar\tsome free text',
- 'refname\tvariants_only\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id7:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSYN\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id1:ref has wild type, foo bar\tsome free text',
+ 'refname\t0\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tn\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id2:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id3:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id4:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t0\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id5:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id6:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tp\tA14T\t0\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id7:ref has wild type, foo bar\tsome free text',
+ 'refname\t1\t1\t19\t78\tcluster\t120\t100\t98.33\tctg_name\t279\t24.4\t0\tSNP\tp\tA14T\t.\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnoncoding1:n:A14T:id7:ref has wild type, foo bar\tsome free text',
]
dicts = [summary_cluster.SummaryCluster.line2dict(line) for line in lines]
cluster = summary_cluster.SummaryCluster()
@@ -389,8 +390,8 @@ class TestSummaryCluster(unittest.TestCase):
def test_column_summary_data(self):
'''Test column_summary_data'''
- line1 = 'ref1\tnon_coding\t531\t78\tcluster1\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnon_coding1:n:A14T:id1:foo_bar\tspam eggs'
- line2 = 'ref1\tnon_coding\t531\t78\tcluster1\t120\t95\t98.42\tctg_name\t279\t24.4\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\tsome free text'
+ line1 = 'ref1\t0\t0\t531\t78\tcluster1\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnon_coding1:n:A14T:id1:foo_bar\tspam eggs'
+ line2 = 'ref1\t0\t0\t531\t78\tcluster1\t120\t95\t98.42\tctg_name\t279\t24.4\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\tsome free text'
data_dict1 = summary_cluster.SummaryCluster.line2dict(line1)
data_dict2 = summary_cluster.SummaryCluster.line2dict(line2)
@@ -399,7 +400,7 @@ class TestSummaryCluster(unittest.TestCase):
cluster.add_data_dict(data_dict2)
expected = {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'ref1',
'novel_var': 'no',
'known_var': 'yes',
@@ -411,8 +412,8 @@ class TestSummaryCluster(unittest.TestCase):
def test_non_synon_variants(self):
'''Test non_synon_variants'''
- line1 = 'ref1\tnon_coding\t531\t78\tcluster1\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnon_coding1:n:A14T:id1:foo_bar\tspam eggs'
- line2 = 'ref1\tnon_coding\t531\t78\tcluster1\t120\t95\t98.42\tctg_name\t279\t24.4\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\tsome free text'
+ line1 = 'ref1\t0\t0\t531\t78\tcluster1\t120\t100\t98.33\tctg_name\t279\t24.4\t1\tSNP\tn\tA14T\t1\tA14T\tSNP\t13\t13\tA\t84\t84\tT\t17\t.\t17\tnon_coding1:n:A14T:id1:foo_bar\tspam eggs'
+ line2 = 'ref1\t0\t0\t531\t78\tcluster1\t120\t95\t98.42\tctg_name\t279\t24.4\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\t.\tsome free text'
data_dict1 = summary_cluster.SummaryCluster.line2dict(line1)
data_dict2 = summary_cluster.SummaryCluster.line2dict(line2)
diff --git a/ariba/tests/summary_sample_test.py b/ariba/tests/summary_sample_test.py
index 3c5b2be..d71cb56 100644
--- a/ariba/tests/summary_sample_test.py
+++ b/ariba/tests/summary_sample_test.py
@@ -42,7 +42,7 @@ class TestSummarySample(unittest.TestCase):
expected = {
'cluster.n': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'noncoding1',
'known_var': 'yes',
'novel_var': 'yes',
@@ -50,7 +50,7 @@ class TestSummarySample(unittest.TestCase):
},
'cluster.p': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'presence_absence1',
'known_var': 'yes',
'novel_var': 'no',
@@ -58,7 +58,7 @@ class TestSummarySample(unittest.TestCase):
},
'cluster.v': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'variants_only1',
'known_var': 'yes',
'novel_var': 'no',
diff --git a/ariba/tests/summary_test.py b/ariba/tests/summary_test.py
index b748862..25bf6a5 100644
--- a/ariba/tests/summary_test.py
+++ b/ariba/tests/summary_test.py
@@ -1,8 +1,7 @@
import unittest
-import copy
import filecmp
import os
-from ariba import flag, summary, summary_cluster, summary_sample
+from ariba import summary, summary_sample
modules_dir = os.path.dirname(os.path.abspath(summary.__file__))
data_dir = os.path.join(modules_dir, 'tests', 'data')
@@ -21,7 +20,7 @@ class TestSummary(unittest.TestCase):
def test_determine_cluster_cols(self):
col_strings = [
- 'assembled,has_res,ref_seq,pct_id,known_var,novel_var',
+ 'assembled,match,ref_seq,pct_id,known_var,novel_var',
'ref_seq,pct_id,known_var,novel_var',
'assembled,pct_id,known_var,novel_var',
'assembled',
@@ -30,12 +29,12 @@ class TestSummary(unittest.TestCase):
]
expected = [
- {'assembled': True, 'has_res': True, 'ref_seq': True, 'pct_id': True, 'known_var': True, 'novel_var': True},
- {'assembled': False, 'has_res': False, 'ref_seq': True, 'pct_id': True, 'known_var': True, 'novel_var': True},
- {'assembled': True, 'has_res': False, 'ref_seq': False, 'pct_id': True, 'known_var': True, 'novel_var': True},
- {'assembled': True, 'has_res': False, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False},
- {'assembled': False, 'has_res': False, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False},
- {'assembled': False, 'has_res': False, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False},
+ {'assembled': True, 'match': True, 'ref_seq': True, 'pct_id': True, 'known_var': True, 'novel_var': True},
+ {'assembled': False, 'match': False, 'ref_seq': True, 'pct_id': True, 'known_var': True, 'novel_var': True},
+ {'assembled': True, 'match': False, 'ref_seq': False, 'pct_id': True, 'known_var': True, 'novel_var': True},
+ {'assembled': True, 'match': False, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False},
+ {'assembled': False, 'match': False, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False},
+ {'assembled': False, 'match': False, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False},
]
assert len(col_strings) == len(expected)
@@ -137,7 +136,7 @@ class TestSummary(unittest.TestCase):
infiles[0]: {
'noncoding1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'noncoding1',
'known_var': 'yes',
'novel_var': 'no',
@@ -145,7 +144,7 @@ class TestSummary(unittest.TestCase):
},
'presence_absence1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'presence_absence1',
'known_var': 'no',
'novel_var': 'yes',
@@ -153,7 +152,7 @@ class TestSummary(unittest.TestCase):
},
'variants_only1': {
'assembled': 'no',
- 'has_res': 'no',
+ 'match': 'no',
'ref_seq': 'NA',
'known_var': 'NA',
'novel_var': 'NA',
@@ -163,7 +162,7 @@ class TestSummary(unittest.TestCase):
infiles[1]: {
'noncoding1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'noncoding1',
'known_var': 'yes',
'novel_var': 'no',
@@ -171,7 +170,7 @@ class TestSummary(unittest.TestCase):
},
'presence_absence1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'presence_absence1',
'pct_id': '98.96',
'known_var': 'no',
@@ -179,7 +178,7 @@ class TestSummary(unittest.TestCase):
},
'variants_only1': {
'assembled': 'no',
- 'has_res': 'no',
+ 'match': 'no',
'ref_seq': 'NA',
'known_var': 'NA',
'novel_var': 'NA',
@@ -220,7 +219,7 @@ class TestSummary(unittest.TestCase):
for gene_type in expected[filename]:
del expected[filename][gene_type]['ref_seq']
- s = summary.Summary('out', filenames=infiles, cluster_cols='assembled,has_res,pct_id,known_var,novel_var', variant_cols='ungrouped,grouped,novel')
+ s = summary.Summary('out', filenames=infiles, cluster_cols='assembled,match,pct_id,known_var,novel_var', variant_cols='ungrouped,grouped,novel')
s.samples = summary.Summary._load_input_files(infiles, 90)
s.include_all_variant_columns = True
got = s._gather_output_rows()
@@ -233,7 +232,7 @@ class TestSummary(unittest.TestCase):
'file1': {
'cluster.n.1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'noncoding1',
'known_var': 'yes',
'novel_var': 'no',
@@ -242,7 +241,7 @@ class TestSummary(unittest.TestCase):
},
'cluster.p.1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'presence_absence1',
'known_var': 'yes',
'novel_var': 'no',
@@ -251,7 +250,7 @@ class TestSummary(unittest.TestCase):
},
'cluster.v.1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'varonly1',
'known_var': 'no',
'novel_var': 'no',
@@ -261,7 +260,7 @@ class TestSummary(unittest.TestCase):
'file2': {
'cluster.n.1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'noncoding1',
'known_var': 'no',
'novel_var': 'no',
@@ -270,7 +269,7 @@ class TestSummary(unittest.TestCase):
},
'cluster.p.1': {
'assembled': 'yes',
- 'has_res': 'yes',
+ 'match': 'yes',
'ref_seq': 'presence_absence1',
'pct_id': '98.96',
'known_var': 'no',
@@ -279,7 +278,7 @@ class TestSummary(unittest.TestCase):
},
'cluster.v.1': {
'assembled': 'no',
- 'has_res': 'NA',
+ 'match': 'NA',
'ref_seq': 'NA',
'known_var': 'NA',
'novel_var': 'NA',
@@ -288,10 +287,10 @@ class TestSummary(unittest.TestCase):
},
}
filenames = ['file1', 'file2']
- cluster_cols = {'assembled': True, 'has_res': True, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False}
+ cluster_cols = {'assembled': True, 'match': True, 'ref_seq': False, 'pct_id': False, 'known_var': False, 'novel_var': False}
got_phandago_header, got_csv_header, got_lines = summary.Summary._to_matrix(filenames, rows, cluster_cols)
- expected_phandango_header = ['name', 'cluster.n.1.assembled.:o1', 'cluster.n.1.has_res.:o1', 'cluster.n.1.noncoding1.A14T:o1', 'cluster.p.1.assembled.:o1', 'cluster.p.1.has_res.:o1', 'cluster.p.1.presence_absence1.I42L:o1', 'cluster.v.1.assembled.:o1', 'cluster.v.1.has_res.:o1']
- expected_csv_header = ['name', 'cluster.n.1.assembled', 'cluster.n.1.has_res', 'cluster.n.1.noncoding1.A14T', 'cluster.p.1.assembled', 'cluster.p.1.has_res', 'cluster.p.1.presence_absence1.I42L', 'cluster.v.1.assembled', 'cluster.v.1.has_res']
+ expected_phandango_header = ['name', 'cluster.n.1.assembled:o1', 'cluster.n.1.match:o1', 'cluster.n.1.noncoding1.A14T:o1', 'cluster.p.1.assembled:o1', 'cluster.p.1.match:o1', 'cluster.p.1.presence_absence1.I42L:o1', 'cluster.v.1.assembled:o1', 'cluster.v.1.match:o1']
+ expected_csv_header = ['name', 'cluster.n.1.assembled', 'cluster.n.1.match', 'cluster.n.1.noncoding1.A14T', 'cluster.p.1.assembled', 'cluster.p.1.match', 'cluster.p.1.presence_absence1.I42L', 'cluster.v.1.assembled', 'cluster.v.1.match']
expected_lines = [
['file1', 'yes', 'yes', 'yes', 'yes', 'yes', 'yes', 'yes', 'yes'],
['file2', 'yes', 'yes', 'no', 'yes', 'yes', 'no', 'no', 'NA']
@@ -440,7 +439,8 @@ class TestSummary(unittest.TestCase):
tmp_tree = 'tmp.test.newick_from_dist_matrix.tre'
dist_file = os.path.join(data_dir, 'summary_test_newick_from_dist_matrix.distances')
summary.Summary._newick_from_dist_matrix(dist_file, tmp_tree)
- expected = os.path.join(data_dir, 'summary_test_newick_from_dist_matrix.tre')
- self.assertTrue(filecmp.cmp(expected, tmp_tree, shallow=False))
+ # the exact ordering of the nodes is not predictable, so we'll trust dendropy
+ # and just check that an output file got written
+ self.assertTrue(os.path.exists(tmp_tree))
os.unlink(tmp_tree)
diff --git a/ariba/tests/test_refdata_query.py b/ariba/tests/test_refdata_query.py
new file mode 100644
index 0000000..ad1763f
--- /dev/null
+++ b/ariba/tests/test_refdata_query.py
@@ -0,0 +1,90 @@
+import unittest
+import os
+from ariba import refdata_query
+
+modules_dir = os.path.dirname(os.path.abspath(refdata_query.__file__))
+data_dir = os.path.join(modules_dir, 'tests', 'data')
+
+
+class TestRefdataQuery(unittest.TestCase):
+ def setUp(self):
+ self.prepareref_dir = os.path.join(data_dir, 'refdata_query_prepareref')
+ self.rquery = refdata_query.RefdataQuery(self.prepareref_dir)
+
+
+ def test_query_with_unknown_query(self):
+ '''test query with unknown query'''
+ with self.assertRaises(refdata_query.Error):
+ self.rquery.query('notaquery', 'spam')
+
+
+ def test_load_clusters(self):
+ '''test _load_clusters'''
+ infile = os.path.join(self.prepareref_dir, '02.cdhit.clusters.pickle')
+ got = refdata_query.RefdataQuery._load_clusters(infile)
+ expected = {
+ '0': {'noncoding1', 'noncoding2'},
+ '1': {'noncoding3'},
+ '2': {'noncoding4.varonly'},
+ '3': {'gene4'},
+ '4': {'gene1_foo_', 'gene2', 'gene3'},
+ '5': {'gene5.varonly', 'gene6.varonly'},
+ }
+ self.assertEqual(expected, got)
+
+
+ def test_seq2cluster(self):
+ '''test _seq2cluster'''
+ clusters = {
+ '0': {'seq1', 'seq2'},
+ '1': {'seq3', 'seq4'},
+ }
+ self.assertEqual(None, refdata_query.RefdataQuery._seq2cluster(clusters, 'not_there'))
+ self.assertEqual('0', refdata_query.RefdataQuery._seq2cluster(clusters, 'seq1'))
+ self.assertEqual('0', refdata_query.RefdataQuery._seq2cluster(clusters, 'seq2'))
+ self.assertEqual('1', refdata_query.RefdataQuery._seq2cluster(clusters, 'seq3'))
+ self.assertEqual('1', refdata_query.RefdataQuery._seq2cluster(clusters, 'seq4'))
+
+
+ def test_cluster2seqs(self):
+ '''test _cluster2seqs'''
+ expected = ['Sequences belonging to cluster 0:', 'noncoding1', 'noncoding2']
+ got = self.rquery._cluster2seqs('0')
+ self.assertEqual(expected, got)
+
+ expected = ['Cluster name "fortytwo" not found']
+ got = self.rquery._cluster2seqs('fortytwo')
+ self.assertEqual(expected, got)
+
+
+ def test_seqinfo(self):
+ '''test _seqinfo'''
+ expected = ['Sequence "fortytwo" not found']
+ got = self.rquery._seqinfo('fortytwo')
+ self.assertEqual(expected, got)
+
+ expected = [
+ 'Name\tgene5.varonly',
+ 'Is gene\t1',
+ 'Variant only\t1',
+ 'Cluster\t5',
+ 'Description\tGeneric description of gene5.varonly',
+ 'Variant\tH7I\t.\tGeneric description of gene5.varonly H7I',
+ 'Variant\tH7J\t.\tGeneric description of gene5.varonly H7J',
+ 'Sequence\tATGCTGCAATCACTCAACCATCTGACCCTCGCGGTCAGCGACCTGCAAAAAAGCGTTACCTTCTGGCACGAGCTGCTGGGGCTGACGCTGCACGCCCGCTGGAATACCGGGGCCTATCTTACCTGCGGCGATCTGTGGGTCTGCCTGTCCTATGACGAGGCGCGCGGTTACGTGCCGCCGCAGGAGAGCGACTATACCCATTACGCGTTTACCGTTGCGGCGGAAGATTTTGAGCCGTTCTCGCACAAGCTGGAGCAGGCGGGCGTTACCGTCTGGAAGCAAAACAAAAGTGAGGGGGCATCGTTCTATTTTCTCGACCCGGACGGGCACAAGCTGGAGCTGCACGTGGGCAGCCTCGCCGCGCGGCTGGCGGCGTGCCGGGAGAAACCCTATGCCGGAATGGTCTTCACCTCAGACGAGGCTTGA',
+ ]
+
+ got = self.rquery._seqinfo('gene5.varonly')
+ self.assertEqual(expected, got)
+
+ expected = [
+ 'Name\tnoncoding1',
+ 'Is gene\t0',
+ 'Variant only\t0',
+ 'Cluster\t0',
+ 'Description\tGeneric description of noncoding1',
+ 'Sequence\tTCGACGTCGTCAGTACGTCACGTACGTACGTACGTACGTAGTCAGTCAGTCAGTCGTTAATACCTACTGACTGACTGATCGACGTACGTCTGACTGAGTCAGTCAGTCAGTCAGTCTAAACATCTACTGATGTACGAGCAGCTACGTACCGTACGTACGTACGTACTCATATCGTCGTTAACACATACTCTGATCGATCACGTAGTCGTCGTACGTACGTAGTCATATAT',
+ ]
+ got = self.rquery._seqinfo('noncoding1')
+ self.assertEqual(expected, got)
+
diff --git a/ariba/tests/vfdb_parser_test.py b/ariba/tests/vfdb_parser_test.py
index 934e729..3a8d147 100644
--- a/ariba/tests/vfdb_parser_test.py
+++ b/ariba/tests/vfdb_parser_test.py
@@ -33,9 +33,9 @@ class TestVfdbParser(unittest.TestCase):
expected = [
('abcD.VF123(gi:1234).genus_species', 'foobar description [abc]'),
- (headers[1], None),
- (headers[2], None),
- (headers[3], None),
+ (headers[1], '.'),
+ (headers[2], '.'),
+ (headers[3], '.'),
]
assert len(headers) == len(expected)
@@ -50,8 +50,8 @@ class TestVfdbParser(unittest.TestCase):
expected_tsv = os.path.join(data_dir, 'vfdb_parser_test_run.out.tsv')
expected_fa = os.path.join(data_dir, 'vfdb_parser_test_run.out.fa')
outprefix = 'tmp.vfdb_parser_test_run'
- got_tsv = outprefix + '.metadata.tsv'
- got_fa = outprefix + '.presence_absence.fa'
+ got_tsv = outprefix + '.tsv'
+ got_fa = outprefix + '.fa'
vp = vfdb_parser.VfdbParser(infile, outprefix)
vp.run()
self.assertTrue(filecmp.cmp(expected_tsv, got_tsv, shallow=False))
diff --git a/ariba/versions.py b/ariba/versions.py
index a49b3e7..f1201e6 100644
--- a/ariba/versions.py
+++ b/ariba/versions.py
@@ -5,14 +5,14 @@ from ariba import __version__ as ariba_version
package_min_versions = {
- 'openpyxl': '1.6.2',
+ 'dendropy': '4.1.0',
'pyfastaq': '3.12.0',
'pysam': '0.8.1',
'pymummer' : '0.7.1',
}
package_max_versions = {
- 'pysam': '0.8.3',
+ #'pysam': '0.8.3',
}
@@ -31,7 +31,7 @@ def get_all_versions(raise_error=True):
python_packages_ok = True
- for package in ['ariba', 'openpyxl', 'pyfastaq', 'pymummer', 'pysam']:
+ for package in ['ariba', 'dendropy', 'pyfastaq', 'pymummer', 'pysam']:
try:
exec('import ' + package)
version = eval(package + '.__version__')
diff --git a/ariba/vfdb_parser.py b/ariba/vfdb_parser.py
index 9e0dab8..3b9e2a4 100644
--- a/ariba/vfdb_parser.py
+++ b/ariba/vfdb_parser.py
@@ -24,7 +24,7 @@ class VfdbParser:
def _fa_header_to_name_and_metadata(fa_header):
name_data = VfdbParser._fa_header_to_name_pieces(fa_header)
if name_data is None:
- return fa_header, None
+ return fa_header, '.'
else:
vfdb_id, name, description, genus_etc = name_data
return name + '.' + vfdb_id + '.' + genus_etc.replace(' ', '_'), description
@@ -32,13 +32,12 @@ class VfdbParser:
def run(self):
file_reader = pyfastaq.sequences.file_reader(self.infile)
- fa_out = pyfastaq.utils.open_file_write(self.outprefix + '.presence_absence.fa')
- tsv_out = pyfastaq.utils.open_file_write(self.outprefix + '.metadata.tsv')
+ fa_out = pyfastaq.utils.open_file_write(self.outprefix + '.fa')
+ tsv_out = pyfastaq.utils.open_file_write(self.outprefix + '.tsv')
for seq in file_reader:
seq.id, description = self._fa_header_to_name_and_metadata(seq.id)
- if description is not None:
- print(seq.id, '.', '.', '.', description, sep='\t', file=tsv_out)
+ print(seq.id, '1', '0', '.', '.', description, sep='\t', file=tsv_out)
print(seq, file=fa_out)
pyfastaq.utils.close(fa_out)
diff --git a/install_dependencies.sh b/install_dependencies.sh
index 5267d31..e3aae8d 100755
--- a/install_dependencies.sh
+++ b/install_dependencies.sh
@@ -7,16 +7,16 @@ start_dir=$(pwd)
BCFTOOLS_VERSION=1.3
BOWTIE2_VERSION=2.2.8
CDHIT_VERSION=4.6.5
+MASH_VERSION=1.1
SAMTOOLS_VERSION=1.3
MUMMER_VERSION=3.23
-SPADES_VERSION=3.6.0
BCFTOOLS_DOWNLOAD_URL="https://github.com/samtools/bcftools/releases/download/1.3/bcftools-${BCFTOOLS_VERSION}.tar.bz2"
BOWTIE2_DOWNLOAD_URL="http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/${BOWTIE2_VERSION}/bowtie2-${BOWTIE2_VERSION}-linux-x86_64.zip"
CDHIT_DOWNLOAD_URL="https://github.com/weizhongli/cdhit/archive/V${CDHIT_VERSION}.tar.gz"
+MASH_DOWNLOAD_URL="https://github.com/marbl/Mash/releases/download/v${MASH_VERSION}/mash-Linux64-v${MASH_VERSION}.tar.gz"
SAMTOOLS_DOWNLOAD_URL="https://github.com/samtools/samtools/releases/download/${SAMTOOLS_VERSION}/samtools-${SAMTOOLS_VERSION}.tar.bz2"
MUMMER_DOWNLOAD_URL="http://downloads.sourceforge.net/project/mummer/mummer/${MUMMER_VERSION}/MUMmer${MUMMER_VERSION}.tar.gz"
-SPADES_DOWNLOAD_URL="http://spades.bioinf.spbau.ru/release${SPADES_VERSION}/SPAdes-${SPADES_VERSION}-Linux.tar.gz"
# Make an install location
@@ -65,13 +65,11 @@ cd $cdhit_dir
make
-# --------------- samtools -----------------
+# --------------- mash --------------------
cd $build_dir
-download $SAMTOOLS_DOWNLOAD_URL "samtools-${SAMTOOLS_VERSION}.tar.bz2"
-samtools_dir="$build_dir/samtools-${SAMTOOLS_VERSION}"
-tar -xjf samtools-${SAMTOOLS_VERSION}.tar.bz2
-cd $samtools_dir
-make
+download $MASH_DOWNLOAD_URL "mash-Linux64-v${MASH_VERSION}.tar.gz"
+mash_dir="$build_dir/mash-Linux64-v${MASH_VERSION}"
+tar zxf mash-Linux64-v${MASH_VERSION}.tar.gz
# --------------- mummer ------------------
@@ -83,11 +81,14 @@ cd $mummer_dir
make
-# --------------- spades -----------------
+# --------------- samtools -----------------
cd $build_dir
-download $SPADES_DOWNLOAD_URL "SPAdes-${SPADES_VERSION}-Linux.tar.gz"
-spades_dir="$build_dir/SPAdes-${SPADES_VERSION}-Linux/bin"
-tar -zxf SPAdes-${SPADES_VERSION}-Linux.tar.gz
+download $SAMTOOLS_DOWNLOAD_URL "samtools-${SAMTOOLS_VERSION}.tar.bz2"
+samtools_dir="$build_dir/samtools-${SAMTOOLS_VERSION}"
+tar -xjf samtools-${SAMTOOLS_VERSION}.tar.bz2
+cd $samtools_dir
+make
+
cd $start_dir
@@ -102,14 +103,6 @@ update_path () {
update_path ${bcftools_dir}
update_path ${bowtie2_dir}
update_path ${cdhit_dir}
+update_path ${mash_dir}
update_path ${mummer_dir}
update_path ${samtools_dir}
-update_path ${spades_dir}
-
-
-# -------------- R packages ---------------
-mkdir -p ~/R/libs
-echo "R_LIBS=~/R/libs" > ~/.Renviron
-wget https://cran.r-project.org/src/contrib/Archive/ape/ape_3.1.tar.gz
-R CMD INSTALL ape_3.1.tar.gz
-
diff --git a/scripts/ariba b/scripts/ariba
index 28d1678..64a8050 100755
--- a/scripts/ariba
+++ b/scripts/ariba
@@ -1,51 +1,199 @@
#!/usr/bin/env python3
-import sys
-
-tasks = {
- 'getref': 'Download reference data',
- 'prepareref': 'Prepare reference data for running the pipeline',
- 'reportfilter': 'Filter report.tsv file',
- 'run': 'Run the ARIBA local assembly pipeline',
- 'summary': 'Summarise multiple reports made by "run"',
- 'flag': 'Translate the meaning of a flag output by the pipeline',
- 'aln2meta': 'Make metadata input to preparef, using multialignment and SNPs',
- 'test': 'Run on small test dataset',
- 'version': 'Print version and exit',
-}
-
-
-ordered_tasks = [
+import ariba
+import argparse
+
+
+parser = argparse.ArgumentParser(
+ prog='ariba',
+ usage='ariba <command> <options>',
+ description='ARIBA: Antibiotic Resistance Identification By Assembly',
+)
+subparsers = parser.add_subparsers(title='Available commands', help='', metavar='')
+
+#---------------------------- aln2meta ------------------------------------
+coding_choices = ['coding', 'noncoding']
+subparser_aln2meta = subparsers.add_parser(
+ 'aln2meta',
+ help='Converts multi-aln fasta and SNPs to metadata',
+ usage='ariba aln2meta [options] <aln_fasta> <variants_tsv> <(non)coding> <cluster_rep> <outprefix>',
+ description='Make metadata input to prepareref, using multialignment and SNPs',
+)
+
+subparser_aln2meta.add_argument('--genetic_code', type=int, help='Number of genetic code to use. Currently supported 1,4,11 [%(default)s]', choices=[1,4,11], default=11, metavar='INT')
+subparser_aln2meta.add_argument('aln_fasta', help='Multi-fasta file of alignments')
+subparser_aln2meta.add_argument('variants_tsv', help='TSV file of variants information')
+subparser_aln2meta.add_argument('coding_or_non', help='Sequences are coding or noncoding. Must be one of: ' + ' '.join(coding_choices), choices=coding_choices, metavar='(non)coding')
+subparser_aln2meta.add_argument('cluster_rep', help='Name of sequence to be used as cluster representative. Must exactly match a sequence in aln_fasta file')
+subparser_aln2meta.add_argument('outprefix', help='Prefix of output filenames')
+subparser_aln2meta.set_defaults(func=ariba.tasks.aln2meta.run)
+
+
+
+#---------------------------- flag ------------------------------------
+subparser_flag = subparsers.add_parser(
+ 'flag',
+ help='Translate the meaning of a flag',
+ usage='ariba flag <flag>',
+ description='Translate the meaning of a flag output by ARIBA, found in the report tsv file',
+)
+subparser_flag.add_argument('flag_in', type=int, help='Flag to be translated (an integer)', metavar='flag')
+subparser_flag.set_defaults(func=ariba.tasks.flag.run)
+
+
+#---------------------------- getref ------------------------------------
+allowed_dbs = ['argannot', 'card', 'resfinder','vfdb']
+subparser_getref = subparsers.add_parser(
'getref',
+ help='Download reference data',
+ usage='ariba getref [options] <db> <outprefix>',
+ description='Download reference data from one of a few supported public resources',
+)
+subparser_getref.add_argument('--genetic_code', type=int, help='Number of genetic code to use. Currently supported 1,4,11 [%(default)s]', choices=[1,4,11], default=11, metavar='INT')
+subparser_getref.add_argument('db', help='Database to download. Must be one of: ' + ' '.join(allowed_dbs), choices=allowed_dbs)
+subparser_getref.add_argument('outprefix', help='Prefix of output filenames')
+subparser_getref.set_defaults(func=ariba.tasks.getref.run)
+
+
+#----------------------------- prepareref -------------------------------
+subparser_prepareref = subparsers.add_parser(
'prepareref',
- 'run',
+ help='Prepare reference data for input to "run"',
+ usage='ariba prepareref [options] <outdir>',
+ description='Prepare reference data for running the pipeline with "ariba run"',
+ epilog='REQUIRED: -f and -m must each be used at least once',
+)
+input_group = subparser_prepareref.add_argument_group('input files options')
+input_group.add_argument('-f', '--fasta', action='append', dest='fasta_files', required=True, help='REQUIRED. Name of fasta file. Can be used more than once if your sequences are spread over more than on file', metavar='FILENAME')
+input_group.add_argument('-m', '--metadata', action='append', dest='tsv_files', required=True, help='REQUIRED. Name of tsv file of metadata about the input sequences. Can be used more than once if your metadata is spread over more than one file', metavar='FILENAME')
+
+cdhit_group = subparser_prepareref.add_argument_group('cd-hit options')
+cdhit_group.add_argument('--no_cdhit', action='store_true', help='Do not run cd-hit. Each input sequence is put into its own "cluster". Incompatible with --cdhit_clusters.')
+cdhit_group.add_argument('--cdhit_clusters', help='File specifying how the sequences should be clustered. Will be used instead of running cdhit. Format is one cluster per line. Sequence names separated by whitespace. Incompatible with --no_cdhit', metavar='FILENAME')
+cdhit_group.add_argument('--cdhit_min_id', type=float, help='Sequence identity threshold (cd-hit option -c) [%(default)s]', default=0.9, metavar='FLOAT')
+cdhit_group.add_argument('--cdhit_min_length', type=float, help='length difference cutoff (cd-hit option -s) [%(default)s]', default=0.9, metavar='FLOAT')
+
+other_group = subparser_prepareref.add_argument_group('other options')
+other_group.add_argument('--min_gene_length', type=int, help='Minimum allowed length in nucleotides of reference genes [%(default)s]', metavar='INT', default=6)
+other_group.add_argument('--max_gene_length', type=int, help='Maximum allowed length in nucleotides of reference genes [%(default)s]', metavar='INT', default=10000)
+other_group.add_argument('--genetic_code', type=int, help='Number of genetic code to use. Currently supported 1,4,11 [%(default)s]', choices=[1,4,11], default=11, metavar='INT')
+other_group.add_argument('--threads', type=int, help='Number of threads (currently only applies to cdhit) [%(default)s]', default=1, metavar='INT')
+other_group.add_argument('--verbose', action='store_true', help='Be verbose')
+
+subparser_prepareref.add_argument('outdir', help='Output directory (must not already exist)')
+subparser_prepareref.set_defaults(func=ariba.tasks.prepareref.run)
+
+
+
+#----------------------------- refquery -------------------------------
+subparser_refquery = subparsers.add_parser(
+ 'refquery',
+ help='Get cluster or sequence info from prepareref output',
+ usage='ariba refquery <prepareref directory> <cluster|seq> <cluster name|sequence name>',
+ description='Get cluster or sequence info from the output directory made by prepareref',
+)
+subparser_refquery.add_argument('prepareref_dir', help='Name of directory output by prepareref')
+subparser_refquery.add_argument('query_type', choices=['cluster', 'seq'], help='Use "cluster" to get the sequences in a cluster, or "seq" to get information about a sequence')
+subparser_refquery.add_argument('search_name', help='Name of cluster or sequence to search for')
+subparser_refquery.set_defaults(func=ariba.tasks.refquery.run)
+
+
+#----------------------------- reportfilter -------------------------------
+subparser_reportfilter = subparsers.add_parser(
'reportfilter',
+ help='Filters a report tsv file',
+ description='Filters an ARIBA report tsv file made by "ariba run"',
+ usage='ariba reportfilter [options] <infile> <outfile>'
+)
+subparser_reportfilter.add_argument('--exclude_flags', help='Comma-separated list of flags to exclude. [%(default)s]', default='assembly_fail,ref_seq_choose_fail')
+subparser_reportfilter.add_argument('--min_pc_id', type=float, help='Minimum percent identity of nucmer match between contig and reference [%(default)s]', default=90.0, metavar='FLOAT')
+subparser_reportfilter.add_argument('--min_ref_base_asm', type=int, help='Minimum number of reference bases matching assembly [%(default)s]', default=1, metavar='INT')
+subparser_reportfilter.add_argument('--keep_syn', action='store_true', help='Keep synonymous variants (by default they are removed')
+subparser_reportfilter.add_argument('--discard_without_known_var', action='store_true', help='Applies to variant only genes. Filter out where there is a known variant, but the assembly has the wild type. By default these rows are kept.')
+subparser_reportfilter.add_argument('infile', help='Name of input tsv file')
+subparser_reportfilter.add_argument('outfile', help='Name of output tsv file')
+subparser_reportfilter.set_defaults(func=ariba.tasks.reportfilter.run)
+
+
+#----------------------------- run -------------------------------
+subparser_run = subparsers.add_parser(
+ 'run',
+ help='Run the local assembly pipeline',
+ usage='ariba run [options] <prepareref_dir> <reads1.fq> <reads2.fq> <outdir>',
+ description='Runs the local assembly pipeline. Input is dir made by prepareref, and paired reads'
+)
+
+subparser_run.add_argument('prepareref_dir', help='Name of output directory when "ariba prepareref" was run')
+subparser_run.add_argument('reads_1', help='Name of fwd reads fastq file')
+subparser_run.add_argument('reads_2', help='Name of rev reads fastq file')
+subparser_run.add_argument('outdir', help='Output directory (must not already exist)')
+
+nucmer_group = subparser_run.add_argument_group('nucmer options')
+nucmer_group.add_argument('--nucmer_min_id', type=int, help='Minimum alignment identity (delta-filter -i) [%(default)s]', default=90, metavar='INT')
+nucmer_group.add_argument('--nucmer_min_len', type=int, help='Minimum alignment length (delta-filter -i) [%(default)s]', default=20, metavar='INT')
+nucmer_group.add_argument('--nucmer_breaklen', type=int, help='Value to use for -breaklen when running nucmer [%(default)s]', default=200, metavar='INT')
+
+assembly_group = subparser_run.add_argument_group('Assembly options')
+assembly_group.add_argument('--assembly_cov', type=int, help='Target read coverage when sampling reads for assembly [%(default)s]', default=50, metavar='INT')
+assembly_group.add_argument('--min_scaff_depth', type=int, help='Minimum number of read pairs needed as evidence for scaffold link between two contigs [%(default)s]', default=10, metavar='INT')
+
+other_group = subparser_run.add_argument_group('Other options')
+other_group.add_argument('--threads', type=int, help='Number of threads [%(default)s]', default=1, metavar='INT')
+other_group.add_argument('--assembled_threshold', type=float, help='If proportion of gene assembled (regardless of into how many contigs) is at least this value then the flag gene_assembled is set [%(default)s]', default=0.95, metavar='FLOAT (between 0 and 1)')
+other_group.add_argument('--gene_nt_extend', type=int, help='Max number of nucleotides to extend ends of gene matches to look for start/stop codons [%(default)s]', default=30, metavar='INT')
+other_group.add_argument('--unique_threshold', type=float, help='If proportion of bases in gene assembled more than once is <= this value, then the flag unique_contig is set [%(default)s]', default=0.03, metavar='FLOAT (between 0 and 1)')
+other_group.add_argument('--noclean', action='store_true', help='Do not clean up intermediate files')
+other_group.add_argument('--tmp_dir', help='Existing directory in which to create a temporary directory used for local assemblies')
+other_group.add_argument('--verbose', action='store_true', help='Be verbose')
+subparser_run.set_defaults(func=ariba.tasks.run.run)
+
+
+#----------------------------- summary -------------------------------
+summary_presets = ['minimal', 'cluster_small', 'cluster_all', 'cluster_var_groups', 'cluster_known_vars', 'all', 'all_no_filter']
+subparser_summary = subparsers.add_parser(
'summary',
- 'flag',
- 'aln2meta',
- 'test',
- 'version',
-]
+ help='Summarise multiple reports made by "run"',
+ usage='ariba summary [options] <outprefix> [report1.tsv report2.tsv ...]',
+ description='Make a summary of multiple ARIBA report files, and also make Phandango files',
+ epilog='Files must be listed after the output file and/or the option --fofn must be used. If both used, all files in the filename specified by --fofn AND the files listed after the output file will be used as input.'
+)
+subparser_summary.add_argument('-f', '--fofn', help='File of filenames of ariba reports in tsv format (not xls) to be summarised. Must be used if no input files listed after the outfile.', metavar='FILENAME')
+subparser_summary.add_argument('--preset', choices=summary_presets, help='Shorthand for setting --cluster_cols,--col_filter,--row_filter,--known_vars,--novel_vars. Using this overrides those options', metavar='|'.join(summary_presets))
+subparser_summary.add_argument('--cluster_cols', help='Comma separated list of cluster columns to include. Choose from: assembled, match, ref_seq, pct_id, known_var, novel_var [%(default)s]', default='match', metavar='col1,col2,...')
+subparser_summary.add_argument('--col_filter', choices=['y', 'n'], default='y', help='Choose whether columns where all values are "no" or "NA" are removed [%(default)s]', metavar='y|n')
+subparser_summary.add_argument('--row_filter', choices=['y', 'n'], default='y', help='Choose whether rows where all values are "no" or "NA" are removed [%(default)s]', metavar='y|n')
+subparser_summary.add_argument('--var_cols', help='Comma separated list of variant columns to include. Choose from: groups, grouped, ungrouped, novel [none by default]', metavar='col1,col2,...', default='')
+subparser_summary.add_argument('--min_id', type=float, help='Minimum percent identity cutoff to count as assembled [%(default)s]', default=90, metavar='FLOAT')
+subparser_summary.add_argument('--verbose', action='store_true', help='Be verbose')
+subparser_summary.add_argument('outprefix', help='Prefix of output files')
+subparser_summary.add_argument('infiles', nargs='*', help='Files to be summarised')
+subparser_summary.set_defaults(func=ariba.tasks.summary.run)
-def print_usage_and_exit():
- print('Usage: ariba <command> [options] <required arguments>', file=sys.stderr)
- print('\nTo get minimal usage for a command use:\nariba command', file=sys.stderr)
- print('\nTo get full help for a command use one of:\nariba command -h\nariba command --help\n', file=sys.stderr)
- print('\nAvailable commands:\n', file=sys.stderr)
- max_task_length = max([len(x) for x in list(tasks.keys())]) + 1
- for task in ordered_tasks:
- print('{{0: <{}}}'.format(max_task_length).format(task), tasks[task], sep=' ', file=sys.stderr)
- sys.exit(1)
+#----------------------------- test -------------------------------
+subparser_test = subparsers.add_parser(
+ 'test',
+ help='Run small built-in test dataset',
+ usage='ariba test [options] <outdir>',
+ description='Run ARIBA on a small made up built-in test dataset'
+)
-if len(sys.argv) == 1 or sys.argv[1] in ['-h', '-help', '--help']:
- print_usage_and_exit()
+subparser_test.add_argument('--threads', type=int, help='Number of threads [%(default)s]', default=1, metavar='INT')
+subparser_test.add_argument('outdir', help='Name of output directory')
+subparser_test.set_defaults(func=ariba.tasks.test.run)
-task = sys.argv.pop(1)
+#----------------------------- version -------------------------------
+subparser_version = subparsers.add_parser(
+ 'version',
+ help='Get versions and exit',
+ usage='ariba version',
+ description='This reports the version of ARIBA, and also looks for all the dependencies (including python modules) and reports all their versions. Tells you if all looks OK or not'
+)
+subparser_version.set_defaults(func=ariba.tasks.version.run)
-if task not in tasks:
- print('Task "' + task + '" not recognised. Cannot continue.\n', file=sys.stderr)
- print_usage_and_exit()
+args = parser.parse_args()
-exec('import ariba.tasks.' + task)
-exec('ariba.tasks.' + task + '.run()')
+if hasattr(args, 'func'):
+ args.func(args)
+else:
+ parser.print_help()
diff --git a/setup.py b/setup.py
index 8c97908..c2bbbb1 100644
--- a/setup.py
+++ b/setup.py
@@ -2,12 +2,56 @@ import os
import shutil
import sys
import glob
-from setuptools import setup, find_packages
+from setuptools import setup, find_packages, Extension
+
+minimap_c_files = [
+ 'bseq.c',
+ 'index.c',
+ 'kthread.c',
+ 'map.c',
+ 'misc.c',
+ 'sdust.c',
+ 'sketch.c',
+]
+
+minimap_c_files = [os.path.join('third_party', 'minimap-0.2', x) for x in minimap_c_files]
+minimap_c_files.append(os.path.join('ariba', 'ext', 'minimap_ariba.cpp'))
+minimap_mod = Extension(
+ "minimap_ariba",
+ minimap_c_files,
+ extra_link_args=['-lz'],
+ include_dirs=[os.path.join('third_party', 'minimap-0.2')],
+)
+
+fermilite_c_files = [
+ 'bfc.c',
+ 'bseq.c',
+ 'bubble.c',
+ 'htab.c',
+ 'ksw.c',
+ 'kthread.c',
+ 'mag.c',
+ 'misc.c',
+ 'mrope.c',
+ 'rld0.c',
+ 'rle.c',
+ 'rope.c',
+ 'unitig.c'
+]
+fermilite_c_files = [os.path.join('third_party', 'fermi-lite-0.1', x) for x in fermilite_c_files]
+fermilite_c_files.append(os.path.join('ariba', 'ext', 'fml-asm_ariba.cpp'))
+fermilite_mod = Extension(
+ "fermilite_ariba",
+ fermilite_c_files,
+ extra_link_args=['-lz'],
+ include_dirs=[os.path.join('third_party', 'fermi-lite-0.1')],
+)
setup(
+ ext_modules=[minimap_mod, fermilite_mod],
name='ariba',
- version='1.0.1',
+ version='2.0.0',
description='ARIBA: Antibiotic Resistance Identification By Assembly',
packages = find_packages(),
package_data={'ariba': ['test_run_data/*']},
@@ -18,9 +62,9 @@ setup(
test_suite='nose.collector',
tests_require=['nose >= 1.3'],
install_requires=[
- 'openpyxl >= 1.6.2',
+ 'dendropy >= 4.1.0',
'pyfastaq >= 3.12.0',
- 'pysam >= 0.8.1, <= 0.8.3',
+ 'pysam >= 0.8.1',
'pymummer>=0.6.1',
],
license='GPLv3',
--
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