bio-vcf 0.8.1 → 0.9.5

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (84) hide show
  1. checksums.yaml +5 -5
  2. data/.travis.yml +1 -11
  3. data/Gemfile +2 -8
  4. data/LICENSE.txt +1 -1
  5. data/README.md +467 -129
  6. data/RELEASE_NOTES.md +27 -0
  7. data/RELEASE_NOTES.md~ +11 -0
  8. data/Rakefile +9 -42
  9. data/TAGS +115 -0
  10. data/VERSION +1 -1
  11. data/bin/bio-vcf +156 -108
  12. data/bio-vcf.gemspec +13 -75
  13. data/features/cli.feature +22 -4
  14. data/features/diff_count.feature +0 -1
  15. data/features/filter.feature +12 -0
  16. data/features/multisample.feature +12 -0
  17. data/features/somaticsniper.feature +2 -0
  18. data/features/step_definitions/cli-feature.rb +15 -6
  19. data/features/step_definitions/diff_count.rb +1 -1
  20. data/features/step_definitions/multisample.rb +19 -0
  21. data/features/step_definitions/somaticsniper.rb +9 -1
  22. data/features/step_definitions/vcf_header.rb +48 -0
  23. data/features/support/env.rb +1 -11
  24. data/features/vcf_header.feature +35 -0
  25. data/lib/bio-vcf.rb +1 -0
  26. data/lib/bio-vcf/pcows.rb +303 -0
  27. data/lib/bio-vcf/vcffile.rb +46 -0
  28. data/lib/bio-vcf/vcfgenotypefield.rb +19 -19
  29. data/lib/bio-vcf/vcfheader.rb +137 -5
  30. data/lib/bio-vcf/vcfheader_line.rb +778 -0
  31. data/lib/bio-vcf/vcfrecord.rb +56 -18
  32. data/lib/bio-vcf/vcfsample.rb +26 -2
  33. data/lib/regressiontest.rb +11 -0
  34. data/lib/regressiontest/cli_exec.rb +101 -0
  35. data/ragel/gen_vcfheaderline_parser.rl +165 -0
  36. data/ragel/generate.sh +8 -0
  37. data/template/vcf2json.erb +16 -16
  38. data/template/vcf2json_full_header.erb +22 -0
  39. data/template/vcf2json_use_meta.erb +41 -0
  40. data/test/data/input/empty.vcf +2 -0
  41. data/test/data/input/gatk_exome.vcf +237 -0
  42. data/test/data/input/gatk_wgs.vcf +1000 -0
  43. data/test/data/input/test.bed +632 -0
  44. data/test/data/regression/empty-stderr.new +12 -0
  45. data/test/data/regression/empty.new +2 -0
  46. data/test/data/regression/empty.ref +2 -0
  47. data/test/data/regression/eval_once-stderr.new +2 -0
  48. data/test/data/regression/eval_once.new +1 -0
  49. data/test/data/regression/eval_once.ref +1 -0
  50. data/test/data/regression/eval_r.info.dp-stderr.new +10 -0
  51. data/test/data/regression/eval_r.info.dp.new +150 -0
  52. data/test/data/regression/ifilter_s.dp-stderr.new +34 -0
  53. data/test/data/regression/ifilter_s.dp.new +31 -0
  54. data/test/data/regression/pass1-stderr.new +10 -0
  55. data/test/data/regression/pass1.new +88 -0
  56. data/test/data/regression/pass1.ref +88 -0
  57. data/test/data/regression/r.info.dp-stderr.new +4 -0
  58. data/test/data/regression/r.info.dp.new +114 -0
  59. data/test/data/regression/rewrite.info.sample-stderr.new +10 -0
  60. data/test/data/regression/rewrite.info.sample.new +150 -0
  61. data/test/data/regression/s.dp-stderr.new +18 -0
  62. data/test/data/regression/s.dp.new +145 -0
  63. data/test/data/regression/seval_s.dp-stderr.new +10 -0
  64. data/test/data/regression/seval_s.dp.new +36 -0
  65. data/test/data/regression/sfilter_seval_s.dp-stderr.new +18 -0
  66. data/test/data/regression/sfilter_seval_s.dp.new +31 -0
  67. data/test/data/regression/thread4-stderr.new +10 -0
  68. data/test/data/regression/thread4.new +150 -0
  69. data/test/data/regression/thread4_4-stderr.new +25 -0
  70. data/test/data/regression/thread4_4.new +130 -0
  71. data/test/data/regression/thread4_4_failed_filter-stderr.new +5 -0
  72. data/test/data/regression/thread4_4_failed_filter-stderr.ref +5 -2
  73. data/test/data/regression/thread4_4_failed_filter.new +110 -0
  74. data/test/data/regression/vcf2json_full_header-stderr.new +10 -0
  75. data/test/data/regression/vcf2json_full_header.new +225 -0
  76. data/test/data/regression/vcf2json_full_header.ref +225 -0
  77. data/test/data/regression/vcf2json_use_meta-stderr.new +10 -0
  78. data/test/data/regression/vcf2json_use_meta.new +4697 -0
  79. data/test/data/regression/vcf2json_use_meta.ref +4697 -0
  80. data/test/performance/metrics.md +18 -1
  81. data/test/stress/stress_test.sh +15 -0
  82. data/test/tmp/test.vcf +12469 -0
  83. metadata +63 -64
  84. data/Gemfile.lock +0 -81
data/ragel/generate.sh ADDED
@@ -0,0 +1,8 @@
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+ #! /bin/bash
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+
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+ ragel -R gen_vcfheaderline_parser.rl
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+ [ $? -ne 0 ] && exit 1
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+
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+ ruby gen_vcfheaderline_parser.rb
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+
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+ cp gen_vcfheaderline_parser.rb ../lib/bio-vcf/vcfheader_line.rb
data/template/vcf2json.erb CHANGED
@@ -1,20 +1,20 @@
1
1
  =HEADER
2
2
  <% require 'json' %>
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- [
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- { "HEADER": {
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- "options": <%= options.to_h.to_json %>,
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- "files": <%= ARGV %>,
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- "version": "<%= BIOVCF_VERSION %>"
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- },
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-
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- =BODY
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-
12
3
  {
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- "seq:chr": "<%= rec.chrom %>" ,
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- "seq:pos": <%= rec.pos %> ,
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- "seq:ref": "<%= rec.ref %>" ,
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- "seq:alt": "<%= rec.alt[0] %>" ,
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- "dp": <%= rec.info.dp %> ,
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- },
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+ "HEADER": {
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+ "options": <%= options.to_h.to_json %>,
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+ "files": <%= ARGV %>,
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+ "version": "<%= BIOVCF_VERSION %>"
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+ },
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+ "BODY": [
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+ =BODY
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+ {
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+ "seq:chr": "<%= rec.chrom %>",
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+ "seq:pos": <%= rec.pos %>,
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+ "seq:ref": "<%= rec.ref %>",
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+ "seq:alt": "<%= rec.alt[0] %>",
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+ "dp": <%= rec.info.dp %>
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+ },
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18
  =FOOTER
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- ]
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+ ]
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+ }
data/template/vcf2json_full_header.erb ADDED
@@ -0,0 +1,22 @@
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+ =HEADER
2
+ <% require 'json' %>
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+ {
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+ "HEADER": {
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+ "options": <%= options.to_h.to_json %>,
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+ "files": <%= ARGV %>,
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+ "version": "<%= BIOVCF_VERSION %>"
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+ },
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+ "COLUMNS": <%= header.column_names.to_json %>,
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+ "META": <%= header.meta.to_json %>,
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+ "BODY": [
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+ =BODY
13
+ {
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+ "seq:chr": "<%= rec.chrom %>" ,
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+ "seq:pos": <%= rec.pos %> ,
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+ "seq:ref": "<%= rec.ref %>" ,
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+ "seq:alt": "<%= rec.alt[0] %>"
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+ <% if rec.info.dp %> , "dp": <%= rec.info.dp %> <% end %>
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+ },
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+ =FOOTER
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+ ]
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+ }
data/template/vcf2json_use_meta.erb ADDED
@@ -0,0 +1,41 @@
1
+ =HEADER
2
+ <% require 'json' %>
3
+ {
4
+ "HEADER": {
5
+ "options":<%= options.to_h.to_json %>,
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+ "files": <%= ARGV %>,
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+ "version": "<%= BIOVCF_VERSION %>"
8
+ },
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+ "COLUMNS": <%= header.column_names.to_json %>,
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+ "META": <%= header.meta.to_json %>,
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+ "BODY": [
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+ =BODY
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+ <% sample_num = 0
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+ sample_name = nil
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+ sample_size = header.samples.size
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+ %>
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+ {
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+ "seq:chr": "<%= rec.chrom %>" ,
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+ "seq:pos": <%= rec.pos %> ,
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+ "seq:ref": "<%= rec.ref %>" ,
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+ "seq:alt": "<%= rec.alt[0] %>"
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+ <% if rec.info.dp %> , "dp": <%= rec.info.dp %> <% end %>,
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+ "samples" : {
24
+ <% rec.each_sample do |s| %>
25
+ <% if not s.empty?
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+ sample_name = header.samples[sample_num]
27
+ %>
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+ <%= (sample_num!=0 ? "," : "" ) %>
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+ <% sample_num += 1%>
30
+ "<%= sample_name %>": {
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+ <% header.meta['FORMAT'].each_key do |k| %>
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+ "<%= k %>": <%= s[k].to_json %><%= (k==header.meta['FORMAT'].keys.last ? "" : "," ) %>
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+ <% end %>
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+ }
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+ <% end %>
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+ <% end %>
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+ }
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+ },
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+ =FOOTER
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+ ]
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+ }
data/test/data/input/empty.vcf ADDED
@@ -0,0 +1,2 @@
1
+ ##fileformat=VCFv4.0
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+ #CHROM POS ID REF ALT QUAL FILTER INFO
data/test/data/input/gatk_exome.vcf ADDED
@@ -0,0 +1,237 @@
1
+ ##fileformat=VCFv4.1
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+ ##FILTER=<ID=HaplotypeScoreHigh,Description="HaplotypeScore > 13.0">
3
+ ##FILTER=<ID=LowQual,Description="Low quality">
4
+ ##FILTER=<ID=LowQualityDepth,Description="QD < 2.0">
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+ ##FILTER=<ID=MQRankSumLow,Description="MQRankSum < -12.5">
6
+ ##FILTER=<ID=MappingQuality,Description="MQ < 40.0">
7
+ ##FILTER=<ID=ReadPosRankSumLow,Description="ReadPosRankSum < -20.0">
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+ ##FILTER=<ID=SnpCluster,Description="SNPs found in clusters">
9
+ ##FILTER=<ID=StrandBias,Description="FS > 200.0">
10
+ ##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
11
+ ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
12
+ ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
13
+ ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
14
+ ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
15
+ ##GATKCommandLine=<ID=CombineVariants,Version=3.2-2-gec30cee,Date="Thu Oct 30 13:41:59 CET 2014",Epoch=1414672919266,CommandLineOptions="analysis_type=CombineVariants input_file=[] showFullBamList=false read_buffer_size=null phone_home=AWS gatk_key=null tag=NA read_filter=[] intervals=null excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=/hpc/cog_bioinf/GENOMES/Homo_sapiens.GRCh37.GATK.illumina/Homo_sapiens.GRCh37.GATK.illumina.fasta nonDeterministicRandomSeed=false disableDithering=false maxRuntime=-1 maxRuntimeUnits=MINUTES downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=1000 baq=OFF baqGapOpenPenalty=40.0 refactor_NDN_cigar_string=false fix_misencoded_quality_scores=false allow_potentially_misencoded_quality_scores=false useOriginalQualities=false defaultBaseQualities=-1 performanceLog=null BQSR=null quantize_quals=0 disable_indel_quals=false emit_original_quals=false preserve_qscores_less_than=6 globalQScorePrior=-1.0 validation_strictness=SILENT remove_program_records=false keep_program_records=false sample_rename_mapping_file=null unsafe=null disable_auto_index_creation_and_locking_when_reading_rods=false num_threads=1 num_cpu_threads_per_data_thread=1 num_io_threads=0 monitorThreadEfficiency=false num_bam_file_handles=null read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false generateShadowBCF=false variant_index_type=DYNAMIC_SEEK variant_index_parameter=-1 logging_level=INFO log_to_file=null help=false version=false variant=[(RodBindingCollection [(RodBinding name=variant source=/hpc/cog_bioinf/data/robert/testIAP/testSubsetExome/tmp/testSubsetExome.filtered_snps.vcf)]), (RodBindingCollection [(RodBinding name=variant2 source=/hpc/cog_bioinf/data/robert/testIAP/testSubsetExome/tmp/testSubsetExome.filtered_indels.vcf)])] out=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub no_cmdline_in_header=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub sites_only=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub bcf=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub genotypemergeoption=UNSORTED filteredrecordsmergetype=KEEP_IF_ANY_UNFILTERED multipleallelesmergetype=BY_TYPE rod_priority_list=null printComplexMerges=false filteredAreUncalled=false minimalVCF=false excludeNonVariants=false setKey=set assumeIdenticalSamples=false minimumN=1 suppressCommandLineHeader=false mergeInfoWithMaxAC=false filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
16
+ ##GATKCommandLine=<ID=HaplotypeCaller,Version=3.2-2-gec30cee,Date="Thu Oct 30 13:37:05 CET 2014",Epoch=1414672625371,CommandLineOptions="analysis_type=HaplotypeCaller input_file=[/hpc/cog_bioinf/data/robert/testIAP/testSubsetExome/CONTROLP26/mapping/CONTROLP26_dedup.realigned.recalibrated.bam, /hpc/cog_bioinf/data/robert/testIAP/testSubsetExome/CONTROLP25/mapping/CONTROLP25_dedup.realigned.recalibrated.bam] showFullBamList=false read_buffer_size=null phone_home=AWS gatk_key=null tag=NA read_filter=[] intervals=[/hpc/cog_bioinf/data/robert/testIAP/testSubsetExome/tmp/.queue/scatterGather/HaplotypeCaller-1-sg/temp_01_of_12/scatter.intervals] excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=/hpc/cog_bioinf/GENOMES/Homo_sapiens.GRCh37.GATK.illumina/Homo_sapiens.GRCh37.GATK.illumina.fasta nonDeterministicRandomSeed=false disableDithering=false maxRuntime=-1 maxRuntimeUnits=MINUTES downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=250 baq=OFF baqGapOpenPenalty=40.0 refactor_NDN_cigar_string=false fix_misencoded_quality_scores=false allow_potentially_misencoded_quality_scores=false useOriginalQualities=false defaultBaseQualities=-1 performanceLog=null BQSR=null quantize_quals=0 disable_indel_quals=false emit_original_quals=false preserve_qscores_less_than=6 globalQScorePrior=-1.0 validation_strictness=SILENT remove_program_records=false keep_program_records=false sample_rename_mapping_file=null unsafe=null disable_auto_index_creation_and_locking_when_reading_rods=false num_threads=1 num_cpu_threads_per_data_thread=1 num_io_threads=0 monitorThreadEfficiency=false num_bam_file_handles=null read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false generateShadowBCF=false variant_index_type=DYNAMIC_SEEK variant_index_parameter=-1 logging_level=INFO log_to_file=null help=false version=false out=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub no_cmdline_in_header=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub sites_only=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub bcf=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub likelihoodCalculationEngine=PairHMM heterogeneousKmerSizeResolution=COMBO_MIN graphOutput=null bamOutput=null bam_compression=null disable_bam_indexing=null generate_md5=null simplifyBAM=null bamWriterType=CALLED_HAPLOTYPES dbsnp=(RodBinding name=dbsnp source=/hpc/cog_bioinf/common_scripts/GATK_v2.7/bundle/dbsnp_137.b37.vcf) dontTrimActiveRegions=false maxDiscARExtension=25 maxGGAARExtension=300 paddingAroundIndels=150 paddingAroundSNPs=20 comp=[] annotation=[ClippingRankSumTest, DepthPerSampleHC] excludeAnnotation=[SpanningDeletions, TandemRepeatAnnotator] debug=false useFilteredReadsForAnnotations=false emitRefConfidence=NONE annotateNDA=false heterozygosity=0.001 indel_heterozygosity=1.25E-4 standard_min_confidence_threshold_for_calling=30.0 standard_min_confidence_threshold_for_emitting=15.0 max_alternate_alleles=6 input_prior=[] sample_ploidy=2 genotyping_mode=DISCOVERY alleles=(RodBinding name= source=UNBOUND) contamination_fraction_to_filter=0.0 contamination_fraction_per_sample_file=null p_nonref_model=EXACT_INDEPENDENT exactcallslog=null output_mode=EMIT_VARIANTS_ONLY allSitePLs=false kmerSize=[10, 25] dontIncreaseKmerSizesForCycles=false allowNonUniqueKmersInRef=false numPruningSamples=1 recoverDanglingHeads=false doNotRecoverDanglingTails=false consensus=false GVCFGQBands=[5, 20, 60] indelSizeToEliminateInRefModel=10 min_base_quality_score=10 minPruning=2 gcpHMM=10 includeUmappedReads=false useAllelesTrigger=false phredScaledGlobalReadMismappingRate=45 maxNumHaplotypesInPopulation=128 mergeVariantsViaLD=false pair_hmm_implementation=VECTOR_LOGLESS_CACHING keepRG=null justDetermineActiveRegions=false dontGenotype=false errorCorrectKmers=false debugGraphTransformations=false dontUseSoftClippedBases=false captureAssemblyFailureBAM=false allowCyclesInKmerGraphToGeneratePaths=false noFpga=false errorCorrectReads=false kmerLengthForReadErrorCorrection=25 minObservationsForKmerToBeSolid=20 pcr_indel_model=CONSERVATIVE activityProfileOut=null activeRegionOut=null activeRegionIn=null activeRegionExtension=null forceActive=false activeRegionMaxSize=null bandPassSigma=null min_mapping_quality_score=20 filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
17
+ ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
18
+ ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
19
+ ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
20
+ ##INFO=<ID=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities">
21
+ ##INFO=<ID=ClippingRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref number of hard clipped bases">
22
+ ##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP Membership">
23
+ ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered">
24
+ ##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?">
25
+ ##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
26
+ ##INFO=<ID=HaplotypeScore,Number=1,Type=Float,Description="Consistency of the site with at most two segregating haplotypes">
27
+ ##INFO=<ID=InbreedingCoeff,Number=1,Type=Float,Description="Inbreeding coefficient as estimated from the genotype likelihoods per-sample when compared against the Hardy-Weinberg expectation">
28
+ ##INFO=<ID=MLEAC,Number=A,Type=Integer,Description="Maximum likelihood expectation (MLE) for the allele counts (not necessarily the same as the AC), for each ALT allele, in the same order as listed">
29
+ ##INFO=<ID=MLEAF,Number=A,Type=Float,Description="Maximum likelihood expectation (MLE) for the allele frequency (not necessarily the same as the AF), for each ALT allele, in the same order as listed">
30
+ ##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality">
31
+ ##INFO=<ID=MQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads">
32
+ ##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities">
33
+ ##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
34
+ ##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias">
35
+ ##INFO=<ID=set,Number=1,Type=String,Description="Source VCF for the merged record in CombineVariants">
36
+ ##contig=<ID=1,length=249250621>
37
+ ##contig=<ID=2,length=243199373>
38
+ ##contig=<ID=3,length=198022430>
39
+ ##contig=<ID=4,length=191154276>
40
+ ##contig=<ID=5,length=180915260>
41
+ ##contig=<ID=6,length=171115067>
42
+ ##contig=<ID=7,length=159138663>
43
+ ##contig=<ID=8,length=146364022>
44
+ ##contig=<ID=9,length=141213431>
45
+ ##contig=<ID=10,length=135534747>
46
+ ##contig=<ID=11,length=135006516>
47
+ ##contig=<ID=12,length=133851895>
48
+ ##contig=<ID=13,length=115169878>
49
+ ##contig=<ID=14,length=107349540>
50
+ ##contig=<ID=15,length=102531392>
51
+ ##contig=<ID=16,length=90354753>
52
+ ##contig=<ID=17,length=81195210>
53
+ ##contig=<ID=18,length=78077248>
54
+ ##contig=<ID=19,length=59128983>
55
+ ##contig=<ID=20,length=63025520>
56
+ ##contig=<ID=21,length=48129895>
57
+ ##contig=<ID=22,length=51304566>
58
+ ##contig=<ID=X,length=155270560>
59
+ ##contig=<ID=Y,length=59373566>
60
+ ##contig=<ID=MT,length=16569>
61
+ ##reference=file:///hpc/cog_bioinf/GENOMES/Homo_sapiens.GRCh37.GATK.illumina/Homo_sapiens.GRCh37.GATK.illumina.fasta
62
+ #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT CONTROLP25 CONTROLP26
63
+ 1 22848972 rs61769198 A C 43.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:69,6,0 ./.
64
+ 1 33133968 rs2762904 T C 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
65
+ 1 60466814 rs626251 T C 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
66
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+ 17 8363486 . C A 23.19 LowQual AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0 ./.
204
+ 17 9515777 rs6503235 G A 42.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.09;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:68,6,0
205
+ 18 31324934 rs7232237 A G 45.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:71,6,0 ./.
206
+ 18 56203447 rs3809979 A G 83.84 PASS AC=4;AF=1.00;AN=4;DB;DP=6;FS=0.000;MLEAC=4;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.95;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:72,6,0 1/1:0,1:1:3:37,3,0
207
+ 19 3434413 rs2302220 C G 44.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.09;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:70,6,0
208
+ 19 6413578 . G T 23.19 LowQual AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
209
+ 19 11221454 rs2738442 T C 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
210
+ 19 21492062 rs547516 G A 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=56.14;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
211
+ 19 22952111 rs34726149 A G 43.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:69,6,0 ./.
212
+ 19 33444511 rs80283382 T C 45.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:71,6,0 ./.
213
+ 19 38378539 rs10422056 G C 41.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=20.59;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:67,6,0
214
+ 19 39915637 rs31727 G A 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
215
+ 19 48389425 rs11083907 A G 43.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.59;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:69,6,0
216
+ 19 53085659 rs366793 C T 44.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.09;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:70,6,0
217
+ 19 53344051 rs112227284 T C 44.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.09;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:70,6,0 ./.
218
+ 19 53912242 rs10426347 G A 76.71 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=25.57;set=Intersection GT:AD:DP:GQ:PL 1/1:0,3:3:9:103,9,0 ./.
219
+ 19 55597421 . A G 23.19 LowQual AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
220
+ 19 57931553 rs10417533 C T 20.21 LowQual AC=2;AF=0.500;AN=4;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DB;DP=6;FS=0.000;MLEAC=3;MLEAF=0.750;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=10.11;ReadPosRankSum=0.736;set=FilteredInAll GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0 0/0:1,0:1:3:0,3,33
221
+ 20 1356261 rs6074549 G C 45.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:71,6,0 ./.
222
+ 20 29625877 rs7266938 G A 34.17 PASS AC=2;AF=0.500;AN=4;BaseQRankSum=0.736;ClippingRankSum=-0.736;DB;DP=6;FS=0.000;MLEAC=3;MLEAF=0.750;MQ=46.65;MQ0=0;MQRankSum=-0.736;QD=17.09;ReadPosRankSum=0.736;set=Intersection GT:AD:DP:GQ:PL 0/0:1,0:1:3:0,3,33 1/1:0,2:2:6:63,6,0
223
+ 20 29628431 rs11152458 C T 42.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.80;MQ0=0;QD=21.09;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:68,6,0
224
+ 20 44839078 . A T 44.17 PASS AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.09;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:70,6,0
225
+ 21 46957794 rs1051266 T C 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
226
+ 21 47786817 rs2839228 C G 47.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=23.58;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:73,6,0
227
+ 22 22550510 rs2073448 T G 45.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.59;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:71,6,0
228
+ 22 22569448 rs5750741 T A 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0 ./.
229
+ 22 30771554 rs2015035 T G 46.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=23.08;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:72,6,0 ./.
230
+ 22 36587845 rs5845253 A ACT 55.13 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=27.57;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:90,6,0
231
+ 22 40800544 rs2235318 C T 44.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=22.09;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:70,6,0 ./.
232
+ 22 41075543 rs133072 A G 43.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:69,6,0 ./.
233
+ 22 43936213 . G A 23.19 LowQual AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
234
+ 22 43936228 . G T 23.19 LowQual AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
235
+ X 55172537 rs1047054 G A 43.17 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.59;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:69,6,0 ./.
236
+ X 107911706 . T C 23.19 LowQual AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:49,6,0
237
+ X 134713855 rs2298301 G A 23.19 LowQual AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=11.60;set=FilteredInAll GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0 ./.
data/test/data/input/gatk_wgs.vcf ADDED
@@ -0,0 +1,1000 @@
1
+ ##fileformat=VCFv4.1
2
+ ##FILTER=<ID=HARD_TO_VALIDATE,Description="MQ0 >= 4 && ((MQ0 / (1.0 * DP)) > 0.1)">
3
+ ##FILTER=<ID=LowQD,Description="QD < 1.5 ">
4
+ ##FILTER=<ID=LowQual,Description="Low quality">
5
+ ##FILTER=<ID=LowQual,Description="QUAL > 30.0 && QUAL < 50.0 ">
6
+ ##FILTER=<ID=VeryLowQual,Description="QUAL < 30.0 ">
7
+ ##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
8
+ ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
9
+ ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
10
+ ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
11
+ ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
12
+ ##GATKCommandLine=<ID=UnifiedGenotyper,Version=2.7-2-g6bda569,Date="Wed Oct 09 12:01:28 CEST 2013",Epoch=1381312888392,CommandLineOptions="analysis_type=UnifiedGenotyper input_file=[/home/sge_share_fedor12/BAM/sander/LGR/STE007223/STE007223_dedup_realigned_recalibrated.bam, /home/sge_share_fedor12/BAM/sander/LGR/STE0072Blood/BOXTELBLOOD0072_dedup_realigned_recalibrated.bam, /home/sge_share_fedor12/BAM/sander/LGR/STE007212/STE007212_dedup_realigned_recalibrated.bam, /home/sge_share_fedor12/BAM/sander/LGR/STE007231/STE007231_dedup_realigned_recalibrated.bam] read_buffer_size=null phone_home=AWS gatk_key=null tag=NA read_filter=[] intervals=[/data/sander/variant_calling/STE0072_multi/.queue/scatterGather/UnifiedGenotyper_ref-1-sg/temp_01_of_24/scatter.intervals] excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=/data/common_data/references/H_sapiens/GATK_b37_bundle_reference/basespace/human_g1k_v37.fasta nonDeterministicRandomSeed=false disableDithering=false maxRuntime=-1 maxRuntimeUnits=MINUTES downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=250 baq=OFF baqGapOpenPenalty=40.0 fix_misencoded_quality_scores=false allow_potentially_misencoded_quality_scores=false useOriginalQualities=false defaultBaseQualities=-1 performanceLog=null BQSR=null quantize_quals=0 disable_indel_quals=false emit_original_quals=false preserve_qscores_less_than=6 globalQScorePrior=-1.0 allow_bqsr_on_reduced_bams_despite_repeated_warnings=false validation_strictness=SILENT remove_program_records=false keep_program_records=false sample_rename_mapping_file=null unsafe=null disable_auto_index_creation_and_locking_when_reading_rods=false num_threads=4 num_cpu_threads_per_data_thread=1 num_io_threads=0 monitorThreadEfficiency=false num_bam_file_handles=null read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false generateShadowBCF=false logging_level=INFO log_to_file=null help=false version=false genotype_likelihoods_model=SNP pcr_error_rate=1.0E-4 computeSLOD=false annotateNDA=false pair_hmm_implementation=LOGLESS_CACHING min_base_quality_score=17 max_deletion_fraction=0.05 allSitePLs=false min_indel_count_for_genotyping=5 min_indel_fraction_per_sample=0.25 indelGapContinuationPenalty=10 indelGapOpenPenalty=45 indelHaplotypeSize=80 indelDebug=false ignoreSNPAlleles=false allReadsSP=false ignoreLaneInfo=false reference_sample_calls=(RodBinding name= source=UNBOUND) reference_sample_name=null sample_ploidy=2 min_quality_score=1 max_quality_score=40 site_quality_prior=20 min_power_threshold_for_calling=0.95 min_reference_depth=100 exclude_filtered_reference_sites=false output_mode=EMIT_ALL_CONFIDENT_SITES heterozygosity=0.001 indel_heterozygosity=1.25E-4 genotyping_mode=DISCOVERY standard_min_confidence_threshold_for_calling=30.0 standard_min_confidence_threshold_for_emitting=30.0 alleles=(RodBinding name= source=UNBOUND) max_alternate_alleles=6 input_prior=[] contamination_fraction_to_filter=0.0 contamination_fraction_per_sample_file=null p_nonref_model=EXACT_INDEPENDENT exactcallslog=null dbsnp=(RodBinding name= source=UNBOUND) comp=[] out=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub no_cmdline_in_header=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub sites_only=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub bcf=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub onlyEmitSamples=[] debug_file=null metrics_file=null annotation=[] excludeAnnotation=[] filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
13
+ ##GATKCommandLine=<ID=VariantFiltration,Version=2.7-2-g6bda569,Date="Tue Jan 14 09:12:39 CET 2014",Epoch=1389687159170,CommandLineOptions="analysis_type=VariantFiltration input_file=[] read_buffer_size=null phone_home=AWS gatk_key=null tag=NA read_filter=[] intervals=null excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=/data_fedor13/common_data/references/H_sapiens/GATK_b37_bundle_reference/basespace/human_g1k_v37.fasta nonDeterministicRandomSeed=false disableDithering=false maxRuntime=-1 maxRuntimeUnits=MINUTES downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=1000 baq=OFF baqGapOpenPenalty=40.0 fix_misencoded_quality_scores=false allow_potentially_misencoded_quality_scores=false useOriginalQualities=false defaultBaseQualities=-1 performanceLog=null BQSR=null quantize_quals=0 disable_indel_quals=false emit_original_quals=false preserve_qscores_less_than=6 globalQScorePrior=-1.0 allow_bqsr_on_reduced_bams_despite_repeated_warnings=false validation_strictness=SILENT remove_program_records=false keep_program_records=false sample_rename_mapping_file=null unsafe=null disable_auto_index_creation_and_locking_when_reading_rods=false num_threads=1 num_cpu_threads_per_data_thread=1 num_io_threads=0 monitorThreadEfficiency=false num_bam_file_handles=null read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false generateShadowBCF=false logging_level=INFO log_to_file=null help=false version=false variant=(RodBinding name=variant source=/data_fedor13/sander/variant_calling/STE0072_multi/STE0072_multi_snps.vcf) mask=(RodBinding name= source=UNBOUND) out=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub no_cmdline_in_header=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub sites_only=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub bcf=org.broadinstitute.sting.gatk.io.stubs.VariantContextWriterStub filterExpression=[MQ0 >= 4 && ((MQ0 / (1.0 * DP)) > 0.1), QUAL < 30.0 , QUAL > 30.0 && QUAL < 50.0 , QD < 1.5 ] filterName=[HARD_TO_VALIDATE, VeryLowQual, LowQual, LowQD] genotypeFilterExpression=[] genotypeFilterName=[] clusterSize=3 clusterWindowSize=0 maskExtension=0 maskName=Mask filterNotInMask=false missingValuesInExpressionsShouldEvaluateAsFailing=false invalidatePreviousFilters=false filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
14
+ ##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
15
+ ##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
16
+ ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
17
+ ##INFO=<ID=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities">
18
+ ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered">
19
+ ##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?">
20
+ ##INFO=<ID=Dels,Number=1,Type=Float,Description="Fraction of Reads Containing Spanning Deletions">
21
+ ##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
22
+ ##INFO=<ID=HaplotypeScore,Number=1,Type=Float,Description="Consistency of the site with at most two segregating haplotypes">
23
+ ##INFO=<ID=InbreedingCoeff,Number=1,Type=Float,Description="Inbreeding coefficient as estimated from the genotype likelihoods per-sample when compared against the Hardy-Weinberg expectation">
24
+ ##INFO=<ID=MLEAC,Number=A,Type=Integer,Description="Maximum likelihood expectation (MLE) for the allele counts (not necessarily the same as the AC), for each ALT allele, in the same order as listed">
25
+ ##INFO=<ID=MLEAF,Number=A,Type=Float,Description="Maximum likelihood expectation (MLE) for the allele frequency (not necessarily the same as the AF), for each ALT allele, in the same order as listed">
26
+ ##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality">
27
+ ##INFO=<ID=MQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads">
28
+ ##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities">
29
+ ##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
30
+ ##INFO=<ID=RPA,Number=.,Type=Integer,Description="Number of times tandem repeat unit is repeated, for each allele (including reference)">
31
+ ##INFO=<ID=RU,Number=1,Type=String,Description="Tandem repeat unit (bases)">
32
+ ##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias">
33
+ ##INFO=<ID=STR,Number=0,Type=Flag,Description="Variant is a short tandem repeat">
34
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+ ##contig=<ID=6,length=171115067,assembly=b37>
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47
+ ##contig=<ID=14,length=107349540,assembly=b37>
48
+ ##contig=<ID=15,length=102531392,assembly=b37>
49
+ ##contig=<ID=16,length=90354753,assembly=b37>
50
+ ##contig=<ID=17,length=81195210,assembly=b37>
51
+ ##contig=<ID=18,length=78077248,assembly=b37>
52
+ ##contig=<ID=19,length=59128983,assembly=b37>
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+ ##contig=<ID=X,length=155270560,assembly=b37>
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+ ##contig=<ID=Y,length=59373566,assembly=b37>
58
+ ##contig=<ID=MT,length=16569,assembly=b37>
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119
+ #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT BOXTELBLOOD0072 STE007212 STE007223 STE007231
120
+ 1 10291 . C T 169.20 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.946;DP=905;Dels=0.00;FS=4.440;HaplotypeScore=72.3757;MLEAC=3;MLEAF=0.375;MQ=20.83;MQ0=368;MQRankSum=-0.438;QD=0.25;ReadPosRankSum=-3.435 GT:AD:DP:GQ:PL 0/0:219,12:238:19:0,19,348 0/1:202,24:226:99:111,0,453 0/1:189,19:213:13:13,0,419 0/1:192,30:225:79:79,0,172
121
+ 1 10303 . C T 89.99 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.160;DP=980;Dels=0.00;FS=11.007;HaplotypeScore=93.8187;MLEAC=3;MLEAF=0.375;MQ=20.36;MQ0=417;MQRankSum=0.361;QD=0.12;ReadPosRankSum=2.586 GT:AD:DP:GQ:PL 0/0:231,12:250:53:0,53,640 0/1:218,26:245:53:53,0,444 0/1:209,23:234:54:54,0,421 0/1:221,24:247:17:17,0,267
122
+ 1 10309 . C T 82.17 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.075;DP=975;Dels=0.00;FS=1.641;HaplotypeScore=93.7235;MLEAC=3;MLEAF=0.375;MQ=20.10;MQ0=426;MQRankSum=-0.585;QD=0.11;ReadPosRankSum=0.507 GT:AD:DP:GQ:PL 0/0:223,20:248:42:0,42,404 0/1:222,23:247:12:12,0,543 0/1:207,21:231:56:56,0,369 0/1:219,27:248:48:48,0,208
123
+ 1 10321 . C T 97.17 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.176;DP=974;Dels=0.01;FS=1.382;HaplotypeScore=138.5280;MLEAC=3;MLEAF=0.375;MQ=19.93;MQ0=431;MQRankSum=-1.181;QD=0.13;ReadPosRankSum=0.841 GT:AD:DP:GQ:PL 0/0:232,14:248:27:0,27,454 0/1:222,24:247:17:17,0,517 0/1:203,22:226:14:14,0,536 0/1:206,32:241:99:100,0,352
124
+ 1 10327 . T C 410.69 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.510;DP=971;Dels=0.03;FS=0.000;HaplotypeScore=162.8983;MLEAC=3;MLEAF=0.375;MQ=19.64;MQ0=442;MQRankSum=1.174;QD=0.56;ReadPosRankSum=2.600 GT:AD:DP:GQ:PL 0/1:170,59:233:99:191,0,217 0/1:159,71:232:28:28,0,528 0/0:155,68:225:5:0,5,548 0/1:166,67:234:99:224,0,352
125
+ 1 10583 . G A 104.97 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-4.066;DP=65;Dels=0.00;FS=0.000;HaplotypeScore=0.2479;MLEAC=4;MLEAF=0.500;MQ=38.29;MQ0=0;MQRankSum=-0.025;QD=1.61;ReadPosRankSum=-0.262 GT:AD:DP:GQ:PL 0/1:17,3:20:22:22,0,349 0/1:15,3:18:38:38,0,412 0/1:10,4:14:51:51,0,213 0/1:11,2:13:26:26,0,271
126
+ 1 10694 . C G 31.59 HARD_TO_VALIDATE;LowQual AC=4;AF=1.00;AN=4;DP=6;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=19.63;MQ0=4;QD=7.90 GT:AD:DP:GQ:PL 1/1:0,2:2:3:33,3,0 1/1:0,2:2:3:22,3,0 ./. ./.
127
+ 1 12783 . G A 2537.43 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=6.111;DP=360;Dels=0.00;FS=0.000;HaplotypeScore=1.4766;MLEAC=5;MLEAF=0.625;MQ=14.40;MQ0=231;MQRankSum=-2.807;QD=7.05;ReadPosRankSum=-0.956 GT:AD:DP:GQ:PL 0/1:18,79:97:48:677,0,48 1/1:22,69:91:11:626,11,0 0/1:17,56:74:33:575,0,33 0/1:20,77:97:42:693,0,42
128
+ 1 13110 . G A 146.12 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.768;DP=235;Dels=0.00;FS=7.537;HaplotypeScore=7.8627;MLEAC=3;MLEAF=0.375;MQ=23.13;MQ0=62;MQRankSum=-3.525;QD=0.84;ReadPosRankSum=1.463 GT:AD:DP:GQ:PL 0/1:54,5:59:1:1,0,884 0/1:53,13:66:95:95,0,911 0/1:39,9:48:78:78,0,740 0/0:54,8:62:0:0,0,911
129
+ 1 13116 . T G 1695.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.956;DP=205;Dels=0.00;FS=109.365;HaplotypeScore=6.7694;MLEAC=4;MLEAF=0.500;MQ=22.66;MQ0=60;MQRankSum=-8.991;QD=8.27;ReadPosRankSum=-0.018 GT:AD:DP:GQ:PL 0/1:19,28:47:99:337,0,294 0/1:19,43:62:99:632,0,259 0/1:22,24:46:99:288,0,425 0/1:15,35:50:99:471,0,283
130
+ 1 13118 . A G 1589.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-3.916;DP=197;Dels=0.00;FS=98.775;HaplotypeScore=6.2308;MLEAC=4;MLEAF=0.500;MQ=22.10;MQ0=60;MQRankSum=-8.206;QD=8.07;ReadPosRankSum=-0.222 GT:AD:DP:GQ:PL 0/1:18,27:45:99:340,0,276 0/1:18,38:56:99:552,0,245 0/1:21,23:44:99:263,0,405 0/1:15,36:51:99:467,0,285
131
+ 1 13302 . C T 458.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=4.082;DP=189;Dels=0.00;FS=30.039;HaplotypeScore=1.0973;MLEAC=4;MLEAF=0.500;MQ=23.65;MQ0=79;MQRankSum=-8.041;QD=2.43;ReadPosRankSum=-4.139 GT:AD:DP:GQ:PL 0/1:22,31:53:99:118,0,498 0/1:19,25:44:99:161,0,400 0/1:24,18:42:32:32,0,514 0/1:20,28:48:99:180,0,337
132
+ 1 13649 . G C 93.17 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.681;DP=224;Dels=0.00;FS=0.000;HaplotypeScore=22.7737;MLEAC=2;MLEAF=0.250;MQ=14.02;MQ0=124;MQRankSum=0.981;QD=0.80;ReadPosRankSum=1.571 GT:AD:DP:GQ:PL 0/1:60,9:69:58:58,0,549 0/1:41,7:48:69:69,0,232 0/0:47,5:53:51:0,51,490 0/0:50,4:54:12:0,12,335
133
+ 1 13878 . G C 79.98 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.476;DP=412;Dels=0.00;FS=11.677;HaplotypeScore=0.9186;MLEAC=2;MLEAF=0.250;MQ=12.15;MQ0=266;MQRankSum=2.129;QD=0.39;ReadPosRankSum=0.958 GT:AD:DP:GQ:PL 0/0:81,14:95:55:0,55,707 0/1:93,11:104:20:20,0,438 0/1:89,13:102:94:94,0,432 0/0:104,7:111:55:0,55,722
134
+ 1 14354 . C A 31.58 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=1.468;DP=285;Dels=0.00;FS=7.782;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=4.82;MQ0=273;MQRankSum=0.600;QD=0.16;ReadPosRankSum=-0.289 GT:AD:DP:GQ:PL 0/0:75,14:89:3:0,3,30 0/1:56,12:68:18:18,0,71 0/1:51,13:64:21:21,0,48 0/1:51,13:64:22:24,0,22
135
+ 1 14522 . G A 68.10 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=3.152;DP=209;Dels=0.00;FS=14.099;HaplotypeScore=1.3722;MLEAC=3;MLEAF=0.375;MQ=14.74;MQ0=136;MQRankSum=-0.235;QD=0.42;ReadPosRankSum=4.774 GT:AD:DP:GQ:PL 0/0:40,6:46:18:0,18,202 0/1:48,12:60:17:17,0,283 0/1:37,8:45:32:32,0,172 0/1:47,11:58:53:53,0,410
136
+ 1 14542 . A G 54.12 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.506;DP=229;Dels=0.00;FS=2.344;HaplotypeScore=0.5390;MLEAC=3;MLEAF=0.375;MQ=13.76;MQ0=148;MQRankSum=-0.456;QD=0.30;ReadPosRankSum=2.092 GT:AD:DP:GQ:PL 0/0:44,6:50:27:0,27,305 0/1:57,12:69:5:5,0,416 0/1:40,8:48:26:26,0,236 0/1:51,11:62:56:56,0,390
137
+ 1 14673 . G C 340.98 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.410;DP=200;Dels=0.00;FS=54.600;HaplotypeScore=3.8518;MLEAC=4;MLEAF=0.500;MQ=21.00;MQ0=79;MQRankSum=0.098;QD=1.70;ReadPosRankSum=1.165 GT:AD:DP:GQ:PL 0/1:38,18:56:99:225,0,426 0/1:34,14:48:99:104,0,506 0/1:29,12:41:24:24,0,496 0/1:41,14:55:20:20,0,549
138
+ 1 14699 . C G 436.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=6.043;DP=214;Dels=0.00;FS=20.309;HaplotypeScore=1.8510;MLEAC=4;MLEAF=0.500;MQ=22.16;MQ0=63;MQRankSum=-2.196;QD=2.04;ReadPosRankSum=-0.814 GT:AD:DP:GQ:PL 0/1:33,21:54:99:128,0,337 0/1:37,12:49:36:36,0,585 0/1:34,11:45:83:83,0,678 0/1:40,26:66:99:222,0,562
139
+ 1 14907 . A G 4600.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.701;DP=322;Dels=0.00;FS=16.855;HaplotypeScore=2.9484;MLEAC=4;MLEAF=0.500;MQ=31.50;MQ0=22;MQRankSum=1.772;QD=14.29;ReadPosRankSum=0.119 GT:AD:DP:GQ:PL 0/1:38,53:91:99:1082,0,502 0/1:30,56:86:99:1394,0,463 0/1:19,45:64:99:1016,0,333 0/1:32,49:81:99:1141,0,593
140
+ 1 14930 . A G 4086.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-7.443;DP=320;Dels=0.00;FS=4.792;HaplotypeScore=3.2020;MLEAC=4;MLEAF=0.500;MQ=33.77;MQ0=7;MQRankSum=0.194;QD=12.77;ReadPosRankSum=1.052 GT:AD:DP:GQ:PL 0/1:32,52:84:99:895,0,580 0/1:26,53:79:99:1135,0,468 0/1:22,47:69:99:934,0,521 0/1:30,58:88:99:1155,0,610
141
+ 1 15015 . G C 256.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.245;DP=287;Dels=0.00;FS=77.878;HaplotypeScore=2.4024;MLEAC=3;MLEAF=0.375;MQ=19.83;MQ0=138;MQRankSum=-1.053;QD=1.19;ReadPosRankSum=5.830 GT:AD:DP:GQ:PL 0/0:66,6:72:63:0,63,651 0/1:64,10:74:90:90,0,720 0/1:53,9:62:99:109,0,568 0/1:64,15:79:92:92,0,797
142
+ 1 15045 . C T 214.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=3.992;DP=269;Dels=0.00;FS=44.451;HaplotypeScore=0.9104;MLEAC=3;MLEAF=0.375;MQ=15.66;MQ0=145;MQRankSum=3.074;QD=1.04;ReadPosRankSum=0.394 GT:AD:DP:GQ:PL 0/0:58,5:63:54:0,54,505 0/1:64,10:74:94:94,0,674 0/1:50,7:57:64:64,0,489 0/1:61,14:75:91:91,0,491
143
+ 1 15118 . A G 1625.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.642;DP=304;Dels=0.00;FS=5.636;HaplotypeScore=2.0188;MLEAC=4;MLEAF=0.500;MQ=21.05;MQ0=78;MQRankSum=-0.305;QD=5.35;ReadPosRankSum=-1.493 GT:AD:DP:GQ:PL 0/1:48,23:71:99:406,0,670 0/1:54,24:80:99:461,0,725 0/1:47,28:76:99:464,0,635 0/1:52,25:77:99:327,0,877
144
+ 1 15190 . G A 655.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=4.541;DP=326;Dels=0.00;FS=14.928;HaplotypeScore=2.2227;MLEAC=4;MLEAF=0.500;MQ=25.88;MQ0=64;MQRankSum=-2.193;QD=2.01;ReadPosRankSum=-0.217 GT:AD:DP:GQ:PL 0/1:71,18:90:99:205,0,1221 0/1:71,15:86:99:165,0,1245 0/1:58,15:73:99:166,0,1069 0/1:59,17:77:99:152,0,1268
145
+ 1 15211 . T G 4577.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-6.741;DP=304;Dels=0.00;FS=0.000;HaplotypeScore=2.0978;MLEAC=4;MLEAF=0.500;MQ=26.85;MQ0=55;MQRankSum=0.371;QD=15.06;ReadPosRankSum=-2.341 GT:AD:DP:GQ:PL 0/1:25,54:79:99:1074,0,197 0/1:16,67:83:99:1342,0,113 0/1:14,50:64:99:948,0,184 0/1:23,55:78:99:1246,0,221
146
+ 1 15274 . A T 2908.09 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.557;DP=204;Dels=0.00;FS=0.000;HaplotypeScore=3.0034;MLEAC=7;MLEAF=0.875;MQ=22.35;MQ0=66;MQRankSum=0.975;QD=14.26;ReadPosRankSum=0.044 GT:AD:DP:GQ:PL 1/1:0,37:53:81:800,81,0 1/1:0,37:44:75:739,75,0 1/1:0,29:46:69:702,69,0 1/1:1,45:60:74:950,74,0
147
+ 1 15484 . G A 152.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.783;DP=293;Dels=0.00;FS=9.762;HaplotypeScore=2.0763;MLEAC=3;MLEAF=0.375;MQ=17.27;MQ0=132;MQRankSum=-0.308;QD=0.72;ReadPosRankSum=-0.964 GT:AD:DP:GQ:PL 0/0:75,6:81:87:0,87,844 0/1:65,14:79:68:68,0,905 0/1:48,13:61:67:67,0,525 0/1:61,10:71:52:52,0,737
148
+ 1 16014 . C T 305.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.480;DP=109;Dels=0.00;FS=46.948;HaplotypeScore=1.5285;MLEAC=4;MLEAF=0.500;MQ=12.96;MQ0=73;MQRankSum=2.235;QD=2.81;ReadPosRankSum=-0.844 GT:AD:DP:GQ:PL 0/1:18,8:26:70:70,0,86 0/1:20,14:34:32:128,0,32 0/1:19,4:23:39:39,0,64 0/1:17,9:26:35:101,0,35
149
+ 1 16068 . T C 682.66 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=-1.733;DP=56;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=21.18;MQ0=22;MQRankSum=1.631;QD=12.19;ReadPosRankSum=1.019 GT:AD:DP:GQ:PL 1/1:0,9:9:6:53,6,0 1/1:2,22:24:30:282,30,0 1/1:0,9:9:15:139,15,0 1/1:0,13:14:27:234,27,0
150
+ 1 16103 . T G 1654.37 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.229;DP=96;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=24.23;MQ0=34;MQRankSum=1.509;QD=17.23;ReadPosRankSum=-1.285 GT:AD:DP:GQ:PL 1/1:0,16:17:18:201,18,0 1/1:1,38:39:60:617,60,0 1/1:0,19:19:45:472,45,0 1/1:0,21:21:39:390,39,0
151
+ 1 16257 . G C 1123.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.178;DP=230;Dels=0.00;FS=0.871;HaplotypeScore=2.6943;MLEAC=4;MLEAF=0.500;MQ=27.52;MQ0=50;MQRankSum=1.621;QD=4.89;ReadPosRankSum=0.056 GT:AD:DP:GQ:PL 0/1:46,22:68:99:370,0,794 0/1:31,25:56:99:359,0,605 0/1:37,15:52:99:224,0,663 0/1:40,14:54:99:203,0,799
152
+ 1 16288 . C G 196.15 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.029;DP=109;Dels=0.00;FS=8.923;HaplotypeScore=1.4846;MLEAC=4;MLEAF=0.500;MQ=21.92;MQ0=35;MQRankSum=-1.274;QD=1.80;ReadPosRankSum=-0.124 GT:AD:DP:GQ:PL 0/1:23,6:29:59:59,0,393 0/1:20,7:27:96:96,0,286 0/1:21,7:28:62:62,0,293 0/1:20,5:25:11:11,0,296
153
+ 1 16298 . C T 910.39 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=79;Dels=0.00;FS=0.000;HaplotypeScore=0.4419;MLEAC=8;MLEAF=1.00;MQ=16.62;MQ0=33;QD=11.52 GT:AD:DP:GQ:PL 1/1:0,18:18:30:273,30,0 1/1:0,21:22:27:249,27,0 1/1:0,18:18:15:142,15,0 1/1:0,21:21:30:272,30,0
154
+ 1 16378 . T C 3043.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-6.537;DP=389;Dels=0.00;FS=5.431;HaplotypeScore=1.2797;MLEAC=4;MLEAF=0.500;MQ=17.53;MQ0=197;MQRankSum=-0.836;QD=7.83;ReadPosRankSum=-0.421 GT:AD:DP:GQ:PL 0/1:32,67:99:73:811,0,73 0/1:36,77:113:99:838,0,171 0/1:27,57:85:32:799,0,32 0/1:30,62:92:63:628,0,63
155
+ 1 16495 . G C 1966.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-9.239;DP=288;Dels=0.00;FS=0.618;HaplotypeScore=10.2366;MLEAC=4;MLEAF=0.500;MQ=26.82;MQ0=47;MQRankSum=-0.369;QD=6.83;ReadPosRankSum=-1.074 GT:AD:DP:GQ:PL 0/1:39,30:69:99:583,0,519 0/1:50,30:80:99:446,0,734 0/1:46,33:79:99:553,0,871 0/1:34,26:60:99:417,0,689
156
+ 1 16497 . A G 149.01 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.196;DP=282;Dels=0.00;FS=0.000;HaplotypeScore=10.1968;MLEAC=3;MLEAF=0.375;MQ=26.81;MQ0=49;MQRankSum=-3.719;QD=0.69;ReadPosRankSum=-1.428 GT:AD:DP:GQ:PL 0/0:57,8:66:99:0,119,1395 0/1:64,13:77:16:16,0,1187 0/1:63,18:81:99:108,0,1423 0/1:48,10:58:59:59,0,1121
157
+ 1 16534 . C T 1650.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.115;DP=210;Dels=0.00;FS=2.044;HaplotypeScore=1.1672;MLEAC=4;MLEAF=0.500;MQ=21.39;MQ0=68;MQRankSum=2.751;QD=7.86;ReadPosRankSum=-1.971 GT:AD:DP:GQ:PL 0/1:15,28:43:99:338,0,193 0/1:42,29:71:99:400,0,439 0/1:21,30:51:99:499,0,255 0/1:21,24:45:99:446,0,216
158
+ 1 16571 . G A 876.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.268;DP=172;Dels=0.00;FS=11.474;HaplotypeScore=3.9389;MLEAC=4;MLEAF=0.500;MQ=14.19;MQ0=97;MQRankSum=2.204;QD=5.10;ReadPosRankSum=0.507 GT:AD:DP:GQ:PL 0/1:21,26:47:68:237,0,68 0/1:26,24:50:99:311,0,176 0/1:16,15:31:99:200,0,141 0/1:29,15:44:74:161,0,74
159
+ 1 16580 . C G 145.70 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.744;DP=175;Dels=0.00;FS=4.663;HaplotypeScore=3.9389;MLEAC=3;MLEAF=0.375;MQ=13.85;MQ0=104;MQRankSum=-0.051;QD=1.15;ReadPosRankSum=2.218 GT:AD:DP:GQ:PL 0/1:41,7:48:98:98,0,210 0/1:44,7:51:41:41,0,427 0/1:24,4:28:40:40,0,255 0/0:44,4:48:9:0,9,277
160
+ 1 16631 . T C 44.13 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-3.754;DP=204;Dels=0.00;FS=0.000;HaplotypeScore=0.7033;MLEAC=2;MLEAF=0.250;MQ=13.58;MQ0=127;MQRankSum=-1.439;QD=0.36;ReadPosRankSum=-0.810 GT:AD:DP:GQ:PL 0/1:60,5:65:52:52,0,572 0/1:53,4:57:26:26,0,362 0/0:26,0:26:18:0,18,166 0/0:50,4:54:15:0,15,336
161
+ 1 16841 . G T 210.13 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.139;DP=194;Dels=0.00;FS=0.000;HaplotypeScore=2.6289;MLEAC=4;MLEAF=0.500;MQ=18.63;MQ0=66;MQRankSum=0.050;QD=1.08;ReadPosRankSum=0.360 GT:AD:DP:GQ:PL 0/1:40,9:49:94:94,0,478 0/1:50,4:54:3:3,0,810 0/1:27,11:38:99:101,0,426 0/1:45,5:50:43:43,0,662
162
+ 1 16977 . G A 94.08 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.369;DP=366;Dels=0.00;FS=2.642;HaplotypeScore=0.6197;MLEAC=3;MLEAF=0.375;MQ=10.14;MQ0=286;MQRankSum=0.665;QD=0.35;ReadPosRankSum=1.565 GT:AD:DP:GQ:PL 0/0:73,21:94:16:0,16,370 0/1:79,30:109:30:30,0,385 0/1:62,21:83:60:60,0,261 0/1:57,23:80:38:38,0,317
163
+ 1 17020 . G A 303.73 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.389;DP=375;Dels=0.00;FS=0.848;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=11.92;MQ0=265;MQRankSum=-0.936;QD=0.81;ReadPosRankSum=1.462 GT:AD:DP:GQ:PL 0/1:86,15:102:60:60,0,515 0/1:83,20:103:90:90,0,431 0/1:72,12:84:5:5,0,367 0/1:74,12:86:99:180,0,374
164
+ 1 17385 . G A 890.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.169;DP=503;Dels=0.00;FS=36.376;HaplotypeScore=5.4092;MLEAC=4;MLEAF=0.500;MQ=14.80;MQ0=324;MQRankSum=3.897;QD=1.77;ReadPosRankSum=-0.810 GT:AD:DP:GQ:PL 0/1:97,22:119:99:105,0,256 0/1:98,32:130:99:297,0,646 0/1:91,30:121:99:370,0,604 0/1:107,25:132:99:151,0,720
165
+ 1 17538 . C A 880.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.382;DP=312;Dels=0.00;FS=0.000;HaplotypeScore=2.4657;MLEAC=4;MLEAF=0.500;MQ=29.94;MQ0=125;MQRankSum=-0.804;QD=2.82;ReadPosRankSum=-0.094 GT:AD:DP:GQ:PL 0/1:82,12:94:99:237,0,796 0/1:67,19:86:99:400,0,840 0/1:62,13:75:99:179,0,995 0/1:48,9:57:97:97,0,608
166
+ 1 17746 . A G 590.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-5.079;DP=271;Dels=0.00;FS=0.000;HaplotypeScore=1.7719;MLEAC=4;MLEAF=0.500;MQ=24.30;MQ0=138;MQRankSum=0.374;QD=2.18;ReadPosRankSum=0.811 GT:AD:DP:GQ:PL 0/1:41,15:57:86:86,0,396 0/1:61,21:82:99:212,0,772 0/1:50,21:71:99:127,0,800 0/1:37,22:59:99:198,0,339
167
+ 1 19004 . A G 151.99 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-4.201;DP=193;Dels=0.00;FS=0.000;HaplotypeScore=0.1446;MLEAC=4;MLEAF=0.500;MQ=7.89;MQ0=165;MQRankSum=-0.487;QD=0.79;ReadPosRankSum=-0.580 GT:AD:DP:GQ:PL 0/1:28,24:52:52:52,0,108 0/1:19,33:53:18:42,0,18 0/1:30,16:46:58:58,0,62 0/1:20,22:42:32:32,0,112
168
+ 1 19322 . C T 106.70 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.834;DP=211;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=6.75;MQ0=186;MQRankSum=-0.465;QD=0.69;ReadPosRankSum=-0.794 GT:AD:DP:GQ:PL 0/0:53,4:57:9:0,9,79 0/1:54,4:59:41:41,0,44 0/1:42,9:51:54:62,0,54 0/1:39,5:44:37:37,0,90
169
+ 1 19355 . G A 73.46 HARD_TO_VALIDATE;LowQD AC=3;AF=0.500;AN=6;BaseQRankSum=1.635;DP=242;Dels=0.00;FS=0.000;HaplotypeScore=0.2217;MLEAC=3;MLEAF=0.500;MQ=4.79;MQ0=230;MQRankSum=1.000;QD=0.37;ReadPosRankSum=0.529 GT:AD:DP:GQ:PL ./. 0/1:70,12:82:36:36,0,89 0/1:50,4:54:21:22,0,21 0/1:50,13:63:18:45,0,18
170
+ 1 19391 . G A 73.55 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.267;DP=220;Dels=0.00;FS=0.000;HaplotypeScore=0.8725;MLEAC=3;MLEAF=0.375;MQ=5.33;MQ0=206;MQRankSum=1.467;QD=0.44;ReadPosRankSum=0.667 GT:AD:DP:GQ:PL 0/1:39,4:44:21:21,0,21 0/1:60,10:70:39:39,0,65 0/0:48,3:51:3:0,3,26 0/1:45,10:55:18:45,0,18
171
+ 1 19858 . C T 3188.97 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.384;DP=333;Dels=0.00;FS=0.000;HaplotypeScore=1.0028;MLEAC=4;MLEAF=0.500;MQ=19.98;MQ0=151;MQRankSum=0.762;QD=9.58;ReadPosRankSum=0.238 GT:AD:DP:GQ:PL 0/1:25,49:74:99:621,0,100 0/1:26,53:79:99:750,0,280 0/1:26,65:91:99:960,0,169 0/1:32,57:89:99:890,0,310
172
+ 1 19942 . G C 1077.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=11.081;DP=402;Dels=0.00;FS=0.000;HaplotypeScore=12.7813;MLEAC=4;MLEAF=0.500;MQ=22.81;MQ0=127;MQRankSum=0.156;QD=2.68;ReadPosRankSum=0.543 GT:AD:DP:GQ:PL 0/1:85,26:111:99:288,0,1205 0/1:79,22:102:99:230,0,808 0/1:72,16:88:99:188,0,1097 0/1:77,24:101:99:404,0,1133
173
+ 1 19952 . G T 268.13 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.052;DP=382;Dels=0.00;FS=0.000;HaplotypeScore=13.1417;MLEAC=4;MLEAF=0.500;MQ=22.45;MQ0=123;MQRankSum=-0.189;QD=0.70;ReadPosRankSum=-0.317 GT:AD:DP:GQ:PL 0/1:87,18:105:99:159,0,1313 0/1:90,11:101:80:80,0,1106 0/1:72,7:79:3:3,0,1338 0/1:82,13:95:57:57,0,1585
174
+ 1 20129 . C T 1862.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=5.510;DP=546;Dels=0.00;FS=3.287;HaplotypeScore=10.8088;MLEAC=4;MLEAF=0.500;MQ=22.86;MQ0=48;MQRankSum=0.737;QD=3.41;ReadPosRankSum=-1.548 GT:AD:DP:GQ:PL 0/1:109,33:142:99:333,0,2140 0/1:82,40:122:99:666,0,1409 0/1:93,27:120:99:376,0,1823 0/1:124,37:162:99:520,0,2576
175
+ 1 20144 . G A 3261.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.441;DP=596;Dels=0.00;FS=1.102;HaplotypeScore=11.1173;MLEAC=4;MLEAF=0.500;MQ=24.01;MQ0=51;MQRankSum=2.172;QD=5.47;ReadPosRankSum=-0.792 GT:AD:DP:GQ:PL 0/1:94,52:147:99:876,0,1732 0/1:106,38:144:99:561,0,2015 0/1:86,42:128:99:759,0,1823 0/1:119,58:177:99:1098,0,2380
176
+ 1 20206 . C T 123.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=6.887;DP=693;Dels=0.00;FS=1.259;HaplotypeScore=23.0271;MLEAC=2;MLEAF=0.250;MQ=25.48;MQ0=150;MQRankSum=2.373;QD=0.34;ReadPosRankSum=1.063 GT:AD:DP:GQ:PL 0/0:139,15:155:99:0,139,2522 0/1:171,19:190:45:45,0,2806 0/1:154,19:173:99:113,0,2789 0/0:162,13:175:96:0,96,2839
177
+ 1 20245 . G A 930.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.717;DP=627;Dels=0.00;FS=13.851;HaplotypeScore=15.5971;MLEAC=4;MLEAF=0.500;MQ=23.78;MQ0=218;MQRankSum=1.625;QD=1.48;ReadPosRankSum=1.326 GT:AD:DP:GQ:PL 0/1:119,28:147:99:181,0,1629 0/1:127,33:160:99:232,0,2139 0/1:131,28:159:99:434,0,2164 0/1:138,21:161:99:116,0,2107
178
+ 1 20304 . G C 1182.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.386;DP=429;Dels=0.00;FS=16.345;HaplotypeScore=3.1384;MLEAC=4;MLEAF=0.500;MQ=14.90;MQ0=294;MQRankSum=0.725;QD=2.76;ReadPosRankSum=-1.136 GT:AD:DP:GQ:PL 0/1:68,39:107:99:333,0,314 0/1:59,51:110:99:354,0,336 0/1:56,32:89:99:300,0,443 0/1:73,49:122:99:228,0,418
179
+ 1 20321 . A C 1745.48 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=1.318;DP=432;Dels=0.00;FS=9.367;HaplotypeScore=1.8208;MLEAC=4;MLEAF=0.500;MQ=10.62;MQ0=331;MQRankSum=-0.856;QD=4.04;ReadPosRankSum=-1.850 GT:AD:DP:GQ:PL 1/1:41,71:112:1:575,1,0 0/1:49,62:111:99:393,0,120 0/1:33,51:84:68:410,0,68 0/1:51,73:124:23:398,0,23
180
+ 1 20467 . C T 2196.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-3.972;DP=507;Dels=0.00;FS=0.000;HaplotypeScore=2.2732;MLEAC=4;MLEAF=0.500;MQ=15.67;MQ0=306;MQRankSum=1.851;QD=4.33;ReadPosRankSum=-0.325 GT:AD:DP:GQ:PL 0/1:63,50:114:99:519,0,389 0/1:72,62:134:99:622,0,308 0/1:53,64:117:99:531,0,291 0/1:82,60:142:99:557,0,585
181
+ 1 20512 . G T 1564.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.373;DP=548;Dels=0.00;FS=0.000;HaplotypeScore=0.4002;MLEAC=4;MLEAF=0.500;MQ=14.26;MQ0=401;MQRankSum=1.320;QD=2.86;ReadPosRankSum=2.050 GT:AD:DP:GQ:PL 0/1:61,50:111:99:204,0,103 0/1:90,66:157:99:520,0,465 0/1:67,62:129:99:458,0,346 0/1:83,68:151:99:415,0,431
182
+ 1 20595 . A G 278.46 HARD_TO_VALIDATE;LowQD AC=5;AF=0.625;AN=8;BaseQRankSum=0.000;DP=541;Dels=0.00;FS=0.000;HaplotypeScore=1.3358;MLEAC=5;MLEAF=0.625;MQ=10.60;MQ0=493;MQRankSum=1.508;QD=0.51;ReadPosRankSum=-0.441 GT:AD:DP:GQ:PL 1/1:94,22:116:3:35,3,0 0/1:111,29:140:43:43,0,482 0/1:92,30:122:99:118,0,308 0/1:119,44:163:62:114,0,62
183
+ 1 28511 . G A 64.64 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.038;DP=169;Dels=0.00;FS=0.000;HaplotypeScore=0.6569;MLEAC=3;MLEAF=0.375;MQ=5.49;MQ0=146;MQRankSum=0.635;QD=0.78;ReadPosRankSum=0.635 GT:AD:DP:GQ:PL 0/1:37,6:43:16:44,0,16 1/1:36,4:40:6:54,6,0 0/0:38,2:40:6:0,6,49 0/0:45,1:46:3:0,3,25
184
+ 1 28558 . C T 63.93 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.446;DP=125;Dels=0.00;FS=0.000;HaplotypeScore=0.8418;MLEAC=3;MLEAF=0.375;MQ=8.05;MQ0=86;MQRankSum=0.348;QD=1.07;ReadPosRankSum=1.592 GT:AD:DP:GQ:PL 0/1:19,8:27:19:44,0,19 1/1:24,9:33:6:54,6,0 0/0:28,4:32:9:0,9,76 0/0:27,6:33:3:0,3,25
185
+ 1 28563 . A G 184.82 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.403;DP=122;Dels=0.00;FS=0.000;HaplotypeScore=0.9864;MLEAC=8;MLEAF=1.00;MQ=8.32;MQ0=80;MQRankSum=-1.733;QD=1.51;ReadPosRankSum=-0.825 GT:AD:DP:GQ:PL 1/1:7,20:27:9:81,9,0 1/1:7,24:31:3:27,3,0 1/1:4,28:32:9:76,9,0 1/1:6,25:32:3:25,3,0
186
+ 1 28835 . A G 35.58 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=1.00;AN=4;DP=70;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=5.96;MQ0=60;QD=0.96 GT:AD:DP:GQ:PL ./. ./. 1/1:8,14:22:3:27,3,0 1/1:7,8:15:3:32,3,0
187
+ 1 29368 . G A 35.79 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=2.900;DP=106;Dels=0.00;FS=14.782;HaplotypeScore=0.4967;MLEAC=3;MLEAF=0.375;MQ=14.44;MQ0=66;MQRankSum=-1.538;QD=0.44;ReadPosRankSum=-2.355 GT:AD:DP:GQ:PL 0/1:24,3:27:10:10,0,124 0/0:18,5:23:5:0,5,190 0/1:25,10:35:50:50,0,147 0/1:16,4:20:7:7,0,142
188
+ 1 30548 . T G 413.72 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=-4.559;DP=241;Dels=0.00;FS=0.000;HaplotypeScore=1.3235;MLEAC=8;MLEAF=1.00;MQ=10.91;MQ0=190;MQRankSum=2.879;QD=1.72;ReadPosRankSum=0.605 GT:AD:DP:GQ:PL 1/1:37,15:54:6:56,6,0 1/1:29,31:61:18:154,18,0 0/1:38,28:66:3:150,0,3 1/1:30,29:59:9:80,9,0
189
+ 1 30923 . G T 303.38 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=108;Dels=0.05;FS=0.000;HaplotypeScore=2.2909;MLEAC=8;MLEAF=1.00;MQ=12.79;MQ0=13;QD=2.81 GT:AD:DP:GQ:PL 1/1:0,24:24:9:84,9,0 1/1:0,25:26:3:33,3,0 1/1:0,26:26:6:70,6,0 1/1:0,27:27:15:141,15,0
190
+ 1 31029 . G A 179.31 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=63;Dels=0.00;FS=0.000;HaplotypeScore=1.2400;MLEAC=6;MLEAF=1.00;MQ=9.54;MQ0=54;QD=3.59 GT:AD:DP:GQ:PL ./. 1/1:17,3:20:9:90,9,0 1/1:10,4:14:6:65,6,0 1/1:13,3:16:6:49,6,0
191
+ 1 39255 . A C 530.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.954;DP=200;Dels=0.00;FS=15.994;HaplotypeScore=0.7440;MLEAC=4;MLEAF=0.500;MQ=11.39;MQ0=142;MQRankSum=0.233;QD=2.65;ReadPosRankSum=-1.632 GT:AD:DP:GQ:PL 0/1:30,23:53:99:193,0,101 0/1:30,18:49:82:82,0,167 0/1:22,22:44:33:144,0,33 0/1:26,28:54:57:144,0,57
192
+ 1 39261 . T C 478.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.993;DP=207;Dels=0.00;FS=13.616;HaplotypeScore=1.1063;MLEAC=4;MLEAF=0.500;MQ=10.82;MQ0=152;MQRankSum=-0.322;QD=2.31;ReadPosRankSum=-1.140 GT:AD:DP:GQ:PL 0/1:29,27:56:99:167,0,104 0/1:28,20:48:99:108,0,134 0/1:19,24:43:36:117,0,36 0/1:28,31:60:63:119,0,63
193
+ 1 39292 . G T 49.97 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-1.646;DP=239;Dels=0.00;FS=0.000;HaplotypeScore=0.5615;MLEAC=2;MLEAF=0.250;MQ=8.86;MQ0=198;MQRankSum=0.502;QD=0.54;ReadPosRankSum=0.780 GT:AD:DP:GQ:PL 0/0:59,11:70:6:0,6,278 0/1:34,8:42:62:62,0,121 0/1:43,7:50:21:21,0,48 0/0:68,8:76:21:0,21,198
194
+ 1 39406 . G C 61.11 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.384;DP=256;Dels=0.00;FS=0.000;HaplotypeScore=0.7450;MLEAC=2;MLEAF=0.250;MQ=9.59;MQ0=210;MQRankSum=-0.858;QD=0.30;ReadPosRankSum=0.083 GT:AD:DP:GQ:PL 0/0:51,4:55:24:0,24,224 0/1:65,7:72:1:1,0,195 0/1:54,11:65:84:87,0,84 0/1:59,5:64:2:2,0,371
195
+ 1 39423 . T C 63.33 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-4.034;DP=263;Dels=0.00;FS=0.000;HaplotypeScore=1.0001;MLEAC=2;MLEAF=0.250;MQ=10.82;MQ0=202;MQRankSum=-2.098;QD=0.47;ReadPosRankSum=-0.098 GT:AD:DP:GQ:PL 0/1:38,15:53:78:78,0,160 0/1:67,15:82:19:19,0,238 0/0:59,8:67:11:0,11,303 0/0:49,10:59:57:0,57,533
196
+ 1 39874 . C T 100.95 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.245;DP=235;Dels=0.00;FS=0.000;HaplotypeScore=0.1972;MLEAC=3;MLEAF=0.375;MQ=8.44;MQ0=200;MQRankSum=-0.472;QD=0.59;ReadPosRankSum=0.510 GT:AD:DP:GQ:PL 0/0:63,1:64:27:0,27,250 0/1:50,6:56:65:65,0,91 0/1:51,6:57:18:40,0,18 0/1:53,5:58:30:30,0,172
197
+ 1 47960 . T A 381.78 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=109;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=8.98;MQ0=94;QD=3.50 GT:AD:DP:GQ:PL 1/1:14,13:27:12:118,12,0 1/1:12,16:28:9:89,9,0 1/1:18,11:29:9:89,9,0 1/1:14,9:23:12:111,12,0
198
+ 1 48448 . C T 417.50 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=1.369;DP=195;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=7;MLEAF=0.875;MQ=7.35;MQ0=176;MQRankSum=0.274;QD=2.14;ReadPosRankSum=1.187 GT:AD:DP:GQ:PL 1/1:38,8:46:3:30,3,0 1/1:48,10:58:18:174,18,0 0/1:43,15:58:12:130,0,12 1/1:23,10:33:12:113,12,0
199
+ 1 49291 . C T 64.79 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=13;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=11.83;MQ0=10;QD=5.89 GT:AD:DP:GQ:PL 1/1:2,2:4:3:32,3,0 1/1:0,2:2:3:24,3,0 1/1:3,2:5:3:32,3,0 ./.
200
+ 1 49404 . C A 305.03 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=92;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=7;MLEAF=0.875;MQ=9.72;MQ0=73;QD=3.32 GT:AD:DP:GQ:PL 1/1:9,7:18:9:91,9,0 1/1:10,14:27:9:91,9,0 1/1:13,7:21:3:32,3,0 1/1:10,14:25:15:152,15,0
201
+ 1 49427 . C T 140.37 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=0.724;DP=99;Dels=0.00;FS=3.485;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=11.67;MQ0=70;MQRankSum=-1.864;QD=1.73;ReadPosRankSum=-0.724 GT:AD:DP:GQ:PL 0/0:15,3:18:6:0,6,61 0/1:21,9:30:73:73,0,73 0/1:18,6:24:41:41,0,51 0/1:20,6:27:59:59,0,128
202
+ 1 49448 . A G 185.46 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=-0.898;DP=92;Dels=0.00;FS=0.000;HaplotypeScore=0.3670;MLEAC=5;MLEAF=0.625;MQ=11.04;MQ0=65;MQRankSum=0.558;QD=2.02;ReadPosRankSum=-3.276 GT:AD:DP:GQ:PL 1/1:13,8:21:3:30,3,0 0/1:17,11:28:41:41,0,99 0/1:14,6:20:41:49,0,41 0/1:13,10:23:62:97,0,62
203
+ 1 51898 . C A 165.18 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=13;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=19.14;MQ0=5;QD=12.71 GT:AD:DP:GQ:PL 1/1:0,4:4:6:64,6,0 1/1:0,5:5:3:32,3,0 1/1:0,2:2:3:30,3,0 1/1:0,2:2:6:63,6,0
204
+ 1 51928 . G A 343.93 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=21;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=22.64;MQ0=5;QD=16.38 GT:AD:DP:GQ:PL 1/1:0,5:5:9:97,9,0 1/1:0,8:8:9:85,9,0 1/1:0,4:4:9:94,9,0 1/1:0,4:4:9:93,9,0
205
+ 1 52238 . T G 573.66 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.614;DP=30;Dels=0.00;FS=0.000;HaplotypeScore=0.8083;MLEAC=8;MLEAF=1.00;MQ=28.12;MQ0=0;MQRankSum=-1.494;QD=19.12;ReadPosRankSum=-1.255 GT:AD:DP:GQ:PL 1/1:1,4:6:9:100,9,0 1/1:0,10:10:18:187,18,0 1/1:0,9:9:21:224,21,0 1/1:0,5:5:9:88,9,0
206
+ 1 54001 . A G 200.68 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=23;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=13.94;MQ0=15;QD=8.73 GT:AD:DP:GQ:PL 1/1:2,3:5:6:59,6,0 1/1:1,8:9:3:24,3,0 1/1:0,3:3:6:53,6,0 1/1:3,3:6:9:89,9,0
207
+ 1 54366 . A G 40.58 HARD_TO_VALIDATE;LowQual AC=4;AF=1.00;AN=4;DP=8;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=16.38;MQ0=6;QD=10.14 GT:AD:DP:GQ:PL ./. ./. 1/1:0,1:1:3:34,3,0 1/1:1,2:3:3:30,3,0
208
+ 1 54586 . T C 435.19 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=22;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=29.73;MQ0=4;QD=19.78 GT:AD:DP:GQ:PL 1/1:0,3:4:3:35,3,0 1/1:0,7:7:9:105,9,0 1/1:0,4:4:9:80,9,0 1/1:0,7:7:21:240,21,0
209
+ 1 54676 . C T 475.06 PASS AC=8;AF=1.00;AN=8;DP=21;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=42.50;MQ0=2;QD=22.62 GT:AD:DP:GQ:PL 1/1:0,6:6:9:102,9,0 1/1:0,2:2:6:65,6,0 1/1:0,4:4:6:73,6,0 1/1:0,9:9:24:260,24,0
210
+ 1 54708 . G C 475.99 PASS AC=8;AF=1.00;AN=8;DP=23;Dels=0.00;FS=0.000;HaplotypeScore=3.0597;MLEAC=8;MLEAF=1.00;MQ=43.98;MQ0=2;QD=20.70 GT:AD:DP:GQ:PL 1/1:0,5:5:6:69,6,0 1/1:0,4:4:6:68,6,0 1/1:0,5:5:12:135,12,0 1/1:0,8:9:21:229,21,0
211
+ 1 54716 . C T 194.19 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.137;DP=28;Dels=0.04;FS=13.415;HaplotypeScore=2.8889;MLEAC=4;MLEAF=0.500;MQ=46.77;MQ0=2;MQRankSum=-1.889;QD=10.22;ReadPosRankSum=1.068 GT:AD:DP:GQ:PL 0/1:1,5:6:15:61,0,15 1/1:0,3:3:6:68,6,0 0/1:5,5:10:99:101,0,148 0/0:8,0:8:21:0,21,239
212
+ 1 54720 . C T 36.08 LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=-1.856;DP=33;Dels=0.00;FS=0.000;HaplotypeScore=3.9671;MLEAC=3;MLEAF=0.375;MQ=48.54;MQ0=2;MQRankSum=-0.442;QD=1.64;ReadPosRankSum=-2.386 GT:AD:DP:GQ:PL 0/1:6,1:7:22:22,0,81 0/1:3,1:4:15:15,0,60 0/0:11,0:11:30:0,30,349 0/1:9,2:11:33:33,0,244
213
+ 1 54844 . G A 581.72 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=72;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=17.74;MQ0=48;QD=8.08 GT:AD:DP:GQ:PL 1/1:8,9:17:12:125,12,0 1/1:9,6:15:6:59,6,0 1/1:10,10:20:24:243,24,0 1/1:10,10:20:18:180,18,0
214
+ 1 55085 . T A 637.49 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=58;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=20.01;MQ0=33;QD=10.99 GT:AD:DP:GQ:PL 1/1:11,5:16:12:125,12,0 1/1:4,8:12:18:194,18,0 1/1:6,6:12:15:162,15,0 1/1:7,11:18:18:182,18,0
215
+ 1 55164 . C A 34.33 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=18;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=2;MLEAF=1.00;MQ=12.32;MQ0=12;QD=6.87 GT:AD:DP:GQ:PL ./. ./. 1/1:0,5:5:6:59,6,0 ./.
216
+ 1 56799 . T C 36.58 LowQual AC=4;AF=1.00;AN=4;DP=6;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=16.27;MQ0=1;QD=9.15 GT:AD:DP:GQ:PL 1/1:0,2:2:3:30,3,0 ./. ./. 1/1:0,2:2:3:30,3,0
217
+ 1 57246 . C G 133.08 PASS AC=6;AF=1.00;AN=6;BaseQRankSum=0.736;DP=7;Dels=0.00;FS=0.000;HaplotypeScore=0.2774;MLEAC=6;MLEAF=1.00;MQ=25.13;MQ0=1;MQRankSum=0.736;QD=19.01;ReadPosRankSum=-0.736 GT:AD:DP:GQ:PL 1/1:0,1:1:3:33,3,0 1/1:1,2:3:3:30,3,0 ./. 1/1:0,3:3:9:94,9,0
218
+ 1 57376 . C T 123.18 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=14;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=14.94;MQ0=9;QD=13.69 GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:59,6,0 1/1:0,7:7:9:89,9,0 ./.
219
+ 1 57483 . G A 241.59 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=82;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=8.28;MQ0=72;QD=2.95 GT:AD:DP:GQ:PL 1/1:16,5:21:6:59,6,0 1/1:11,8:20:12:118,12,0 1/1:16,1:17:3:30,3,0 1/1:19,5:24:6:59,6,0
220
+ 1 57856 . T A 835.44 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=74;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=17.70;MQ0=41;QD=11.29 GT:AD:DP:GQ:PL 1/1:7,10:17:21:217,21,0 1/1:10,4:14:12:118,12,0 1/1:14,12:26:27:266,27,0 1/1:6,11:17:24:260,24,0
221
+ 1 58211 . A G 188.56 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;BaseQRankSum=0.747;DP=12;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=21.88;MQ0=4;MQRankSum=0.747;QD=18.86;ReadPosRankSum=-0.747 GT:AD:DP:GQ:PL 1/1:0,2:2:6:59,6,0 1/1:0,2:2:3:30,3,0 ./. 1/1:1,5:6:12:124,12,0
222
+ 1 58771 . T C 669.53 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=83;Dels=0.00;FS=0.000;HaplotypeScore=0.2489;MLEAC=8;MLEAF=1.00;MQ=16.12;MQ0=56;QD=8.07 GT:AD:DP:GQ:PL 1/1:16,9:25:12:133,12,0 1/1:8,8:16:15:152,15,0 1/1:12,6:18:12:127,12,0 1/1:12,12:24:27:283,27,0
223
+ 1 58866 . C G 913.62 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=143;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=12.19;MQ0=107;QD=6.39 GT:AD:DP:GQ:PL 1/1:16,13:29:24:267,24,0 1/1:26,15:41:30:294,30,0 1/1:21,6:27:6:53,6,0 1/1:32,14:46:33:325,33,0
224
+ 1 58989 . C G 61 HARD_TO_VALIDATE;LowQD AC=4;AF=1.00;AN=4;DP=104;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=4.25;MQ0=101;QD=1.07 GT:AD:DP:GQ:PL 1/1:22,5:27:6:55,6,0 ./. ./. 1/1:24,6:30:3:30,3,0
225
+ 1 60332 . T C 772.46 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=79;Dels=0.00;FS=0.000;HaplotypeScore=0.2080;MLEAC=8;MLEAF=1.00;MQ=15.01;MQ0=46;QD=9.78 GT:AD:DP:GQ:PL 1/1:11,11:22:15:148,15,0 1/1:8,12:20:24:231,24,0 1/1:9,6:15:12:123,12,0 1/1:9,13:22:30:296,30,0
226
+ 1 61219 . T C 74 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=67;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=7.72;MQ0=63;QD=1.85 GT:AD:DP:GQ:PL 1/1:12,2:15:6:68,6,0 ./. ./. 1/1:21,4:25:3:30,3,0
227
+ 1 61442 . A G 38.58 HARD_TO_VALIDATE;LowQual AC=4;AF=1.00;AN=4;DP=12;Dels=0.00;FS=0.000;HaplotypeScore=0.4995;MLEAC=4;MLEAF=1.00;MQ=16.42;MQ0=7;QD=5.51 GT:AD:DP:GQ:PL ./. ./. 1/1:0,3:3:3:30,3,0 1/1:0,4:4:3:32,3,0
228
+ 1 61499 . G A 105.33 PASS AC=6;AF=1.00;AN=6;DP=7;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=25.22;MQ0=2;QD=26.33 GT:AD:DP:GQ:PL 1/1:0,1:1:3:30,3,0 1/1:0,2:2:6:64,6,0 1/1:0,1:1:3:35,3,0 ./.
229
+ 1 61851 . T A 318.81 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.470;DP=15;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=28.50;MQ0=2;MQRankSum=0.401;QD=21.25;ReadPosRankSum=0.668 GT:AD:DP:GQ:PL 1/1:1,3:4:6:72,6,0 1/1:0,1:1:3:30,3,0 1/1:0,2:2:3:24,3,0 1/1:0,8:8:21:217,21,0
230
+ 1 61987 . A G 953.43 PASS AC=8;AF=1.00;AN=8;DP=35;Dels=0.00;FS=0.000;HaplotypeScore=0.2495;MLEAC=8;MLEAF=1.00;MQ=50.78;MQ0=2;QD=27.24 GT:AD:DP:GQ:PL 1/1:1,10:12:24:267,24,0 1/1:0,9:9:24:270,24,0 1/1:0,4:4:12:145,12,0 1/1:1,9:10:27:297,27,0
231
+ 1 61989 . G C 1034.43 PASS AC=8;AF=1.00;AN=8;DP=36;Dels=0.00;FS=0.000;HaplotypeScore=0.1446;MLEAC=8;MLEAF=1.00;MQ=50.33;MQ0=2;QD=28.73 GT:AD:DP:GQ:PL 1/1:1,11:12:24:279,24,0 1/1:0,10:10:27:320,27,0 1/1:0,4:4:12:144,12,0 1/1:1,9:10:27:317,27,0
232
+ 1 62203 . T C 1014.53 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=39;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=34.05;MQ0=4;QD=26.01 GT:AD:DP:GQ:PL 1/1:0,11:11:27:296,27,0 1/1:0,6:6:9:92,9,0 1/1:0,6:6:15:175,15,0 1/1:0,16:16:45:477,45,0
233
+ 1 62271 . A G 240.11 PASS AC=6;AF=1.00;AN=6;BaseQRankSum=0.348;DP=14;Dels=0.00;FS=0.000;HaplotypeScore=0.2447;MLEAC=6;MLEAF=1.00;MQ=26.44;MQ0=3;MQRankSum=1.044;QD=18.47;ReadPosRankSum=-1.393 GT:AD:DP:GQ:PL ./. 1/1:1,5:6:9:96,9,0 1/1:1,2:3:6:66,6,0 1/1:0,4:4:9:103,9,0
234
+ 1 62777 . A T 363.51 HARD_TO_VALIDATE AC=5;AF=0.833;AN=6;BaseQRankSum=0.306;DP=57;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=5;MLEAF=0.833;MQ=13.42;MQ0=40;MQRankSum=-1.531;QD=7.13;ReadPosRankSum=-1.531 GT:AD:DP:GQ:PL 1/1:11,7:19:12:125,12,0 0/1:10,10:20:6:183,0,6 1/1:6,6:12:9:83,9,0 ./.
235
+ 1 63516 . A G 87.68 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=18;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=11.65;MQ0=14;QD=7.31 GT:AD:DP:GQ:PL ./. 1/1:2,3:5:3:32,3,0 ./. 1/1:2,5:7:9:80,9,0
236
+ 1 63527 . T C 90.68 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=15;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=12.76;MQ0=11;QD=9.07 GT:AD:DP:GQ:PL ./. 1/1:2,3:5:3:30,3,0 ./. 1/1:1,4:5:9:85,9,0
237
+ 1 64548 . A C 212.95 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=-0.107;DP=106;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=7;MLEAF=0.875;MQ=9.02;MQ0=94;MQRankSum=-0.107;QD=2.01;ReadPosRankSum=0.322 GT:AD:DP:GQ:PL 1/1:30,2:32:6:61,6,0 0/1:23,3:26:26:27,0,26 1/1:16,8:24:9:89,9,0 1/1:21,3:24:6:66,6,0
238
+ 1 64552 . G A 207.93 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=-2.256;DP=110;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=7;MLEAF=0.875;MQ=8.85;MQ0=98;MQRankSum=-0.107;QD=1.89;ReadPosRankSum=0.752 GT:AD:DP:GQ:PL 1/1:29,2:31:6:61,6,0 0/1:26,4:30:26:26,0,31 1/1:16,8:24:9:89,9,0 1/1:21,4:25:6:62,6,0
239
+ 1 65797 . T C 161.33 HARD_TO_VALIDATE;LowQD AC=8;AF=1.00;AN=8;DP=137;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=5.52;MQ0=130;QD=1.18 GT:AD:DP:GQ:PL 1/1:31,6:37:3:32,3,0 1/1:24,6:30:3:26,3,0 1/1:27,3:30:3:32,3,0 1/1:33,7:40:9:95,9,0
240
+ 1 65872 . T G 504.84 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=134;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=9.65;MQ0=116;QD=3.77 GT:AD:DP:GQ:PL 1/1:24,12:36:12:126,12,0 1/1:23,6:29:6:63,6,0 1/1:26,4:30:9:95,9,0 1/1:24,14:38:24:246,24,0
241
+ 1 66162 . A T 262.51 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=-0.791;DP=11;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=28.16;MQ0=0;MQRankSum=1.423;QD=23.86;ReadPosRankSum=-0.474 GT:AD:DP:GQ:PL 1/1:0,3:3:9:95,9,0 1/1:0,1:1:3:32,3,0 1/1:1,2:3:6:63,6,0 1/1:0,4:4:9:97,9,0
242
+ 1 66378 . A T 31.40 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;DP=7;Dels=0.00;FS=0.000;HaplotypeScore=2.9320;MLEAC=1;MLEAF=0.500;MQ=29.36;MQ0=3;MQRankSum=0.736;QD=10.47;ReadPosRankSum=0.736 GT:AD:DP:GQ:PL 0/1:1,2:3:20:57,0,20 ./. ./. ./.
243
+ 1 66577 . A C 40.58 LowQual AC=4;AF=1.00;AN=4;DP=6;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=15.64;MQ0=3;QD=8.12 GT:AD:DP:GQ:PL ./. 1/1:1,1:2:3:32,3,0 ./. 1/1:1,2:3:3:32,3,0
244
+ 1 71875 . G A 92.33 HARD_TO_VALIDATE;LowQD AC=6;AF=1.00;AN=6;DP=87;Dels=0.00;FS=0.000;HaplotypeScore=0.5075;MLEAC=6;MLEAF=1.00;MQ=5.31;MQ0=83;QD=1.36 GT:AD:DP:GQ:PL 1/1:14,6:20:3:30,3,0 ./. 1/1:14,5:19:6:58,6,0 1/1:22,7:29:3:28,3,0
245
+ 1 72862 . G A 246.41 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=95;Dels=0.00;FS=0.000;HaplotypeScore=0.6913;MLEAC=6;MLEAF=0.750;MQ=8.36;MQ0=82;QD=2.59 GT:AD:DP:GQ:PL 1/1:19,8:28:12:103,12,0 1/1:15,4:19:3:29,3,0 1/1:7,7:14:3:29,3,0 1/1:25,8:34:15:143,15,0
246
+ 1 72893 . T C 367.93 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=100;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=8.84;MQ0=86;QD=3.68 GT:AD:DP:GQ:PL 1/1:17,5:22:9:79,9,0 1/1:22,5:27:9:86,9,0 1/1:13,5:18:6:57,6,0 1/1:27,6:33:18:171,18,0
247
+ 1 74570 . T A 73.84 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.053;DP=210;Dels=0.00;FS=0.000;HaplotypeScore=1.5334;MLEAC=4;MLEAF=0.500;MQ=4.80;MQ0=192;MQRankSum=2.920;QD=0.75;ReadPosRankSum=-2.920 GT:AD:DP:GQ:PL 0/0:55,0:55:3:0,3,22 1/1:43,2:46:6:58,6,0 0/1:50,2:52:13:48,0,13 0/0:55,1:56:3:0,3,22
248
+ 1 74681 . G T 642.46 HARD_TO_VALIDATE AC=6;AF=0.750;AN=8;BaseQRankSum=-0.347;DP=79;Dels=0.01;FS=27.597;HaplotypeScore=0.7153;MLEAC=6;MLEAF=0.750;MQ=19.39;MQ0=43;MQRankSum=3.670;QD=8.13;ReadPosRankSum=-0.639 GT:AD:DP:GQ:PL 0/1:20,5:25:7:119,0,7 1/1:8,5:13:15:166,15,0 1/1:10,11:21:8:267,8,0 0/1:13,6:19:7:121,0,7
249
+ 1 74764 . A T 60.85 HARD_TO_VALIDATE AC=2;AF=0.500;AN=4;BaseQRankSum=0.550;DP=57;Dels=0.00;FS=3.979;HaplotypeScore=0.0000;MLEAC=2;MLEAF=0.500;MQ=9.75;MQ0=47;MQRankSum=0.937;QD=2.10;ReadPosRankSum=0.550 GT:AD:DP:GQ:PL 0/1:14,3:17:13:63,0,13 ./. 0/1:10,2:12:16:25,0,16 ./.
250
+ 1 74771 . A G 61.78 HARD_TO_VALIDATE AC=3;AF=0.750;AN=4;BaseQRankSum=-1.380;DP=51;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.750;MQ=10.02;MQ0=42;MQRankSum=0.720;QD=2.57;ReadPosRankSum=0.000 GT:AD:DP:GQ:PL 1/1:10,3:13:6:63,6,0 ./. 0/1:9,2:11:16:26,0,16 ./.
251
+ 1 75139 . C G 211.68 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.423;DP=141;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=6.46;MQ0=130;MQRankSum=0.791;QD=1.50;ReadPosRankSum=-1.107 GT:AD:DP:GQ:PL 1/1:43,2:45:6:60,6,0 1/1:30,4:35:9:83,9,0 1/1:29,2:31:3:29,3,0 1/1:26,4:30:6:64,6,0
252
+ 1 75194 . G C 96.92 HARD_TO_VALIDATE;LowQD AC=8;AF=1.00;AN=8;BaseQRankSum=1.067;DP=117;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=5.82;MQ0=109;MQRankSum=1.067;QD=0.83;ReadPosRankSum=0.572 GT:AD:DP:GQ:PL 1/1:28,2:30:3:29,3,0 1/1:27,2:29:3:30,3,0 1/1:32,1:33:3:32,3,0 1/1:23,2:25:3:29,3,0
253
+ 1 94260 . G A 225.82 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=63;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=8.30;MQ0=52;QD=3.58 GT:AD:DP:GQ:PL 1/1:8,12:20:18:148,18,0 1/1:8,6:14:6:48,6,0 1/1:7,7:14:3:27,3,0 1/1:7,8:15:3:27,3,0
254
+ 1 94545 . C T 308.08 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.272;DP=108;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=8.20;MQ0=89;MQRankSum=3.377;QD=2.85;ReadPosRankSum=0.921 GT:AD:DP:GQ:PL 1/1:32,9:41:18:162,18,0 1/1:16,6:22:9:73,9,0 1/1:19,5:24:6:51,6,0 1/1:15,6:21:6:47,6,0
255
+ 1 94699 . G A 50 HARD_TO_VALIDATE;LowQD AC=4;AF=1.00;AN=4;DP=77;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=3.97;MQ0=72;QD=1.02 GT:AD:DP:GQ:PL 1/1:19,3:22:3:25,3,0 1/1:23,4:27:6:49,6,0 ./. ./.
256
+ 1 94893 . A G 34.58 HARD_TO_VALIDATE;LowQual AC=4;AF=1.00;AN=4;DP=14;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=12.23;MQ0=7;QD=3.84 GT:AD:DP:GQ:PL 1/1:0,5:5:3:25,3,0 1/1:0,4:4:3:33,3,0 ./. ./.
257
+ 1 98033 . G C 156.96 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.457;DP=169;Dels=0.00;FS=3.861;HaplotypeScore=0.2416;MLEAC=4;MLEAF=0.500;MQ=9.18;MQ0=129;MQRankSum=1.402;QD=0.93;ReadPosRankSum=-0.339 GT:AD:DP:GQ:PL 0/1:38,5:43:35:35,0,58 0/1:36,10:46:96:100,0,96 0/1:30,5:35:27:27,0,156 0/1:41,4:45:27:27,0,106
258
+ 1 98945 . C T 68 PASS AC=4;AF=1.00;AN=4;DP=6;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=26.06;MQ0=0;QD=22.67 GT:AD:DP:GQ:PL 1/1:0,2:2:6:59,6,0 ./. ./. 1/1:0,1:1:3:33,3,0
259
+ 1 98993 . G A 116.23 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.639;DP=18;Dels=0.00;FS=2.112;HaplotypeScore=3.4327;MLEAC=4;MLEAF=0.500;MQ=45.35;MQ0=0;MQRankSum=-0.421;QD=7.26;ReadPosRankSum=1.171 GT:AD:DP:GQ:PL 0/0:2,0:2:3:0,3,32 1/1:2,2:4:6:67,6,0 0/1:4,2:6:24:24,0,77 0/1:4,2:6:58:58,0,88
260
+ 1 101268 . G A 184.29 HARD_TO_VALIDATE AC=6;AF=0.750;AN=8;BaseQRankSum=1.090;DP=83;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=7;MLEAF=0.875;MQ=10.18;MQ0=69;MQRankSum=1.246;QD=3.18;ReadPosRankSum=-1.401 GT:AD:DP:GQ:PL 1/1:13,5:18:6:69,6,0 0/0:21,4:25:3:0,3,33 1/1:13,2:15:6:50,6,0 1/1:13,12:25:9:97,9,0
261
+ 1 101389 . A C 172.13 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=0.204;DP=109;Dels=0.00;FS=0.000;HaplotypeScore=0.6778;MLEAC=3;MLEAF=0.375;MQ=19.65;MQ0=65;MQRankSum=-0.436;QD=2.00;ReadPosRankSum=-1.426 GT:AD:DP:GQ:PL 0/1:25,3:28:14:14,0,136 0/1:17,5:22:99:105,0,165 0/1:31,5:36:87:87,0,344 0/0:23,0:23:21:0,21,233
262
+ 1 102138 . C T 169.20 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=17;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=13.91;MQ0=7;QD=11.28 GT:AD:DP:GQ:PL 1/1:2,6:8:12:98,12,0 ./. 1/1:0,3:3:6:49,6,0 1/1:0,4:4:6:47,6,0
263
+ 1 102664 . A G 759.54 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=83;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=17.85;MQ0=58;QD=9.15 GT:AD:DP:GQ:PL 1/1:11,8:19:9:107,9,0 1/1:12,10:22:24:278,24,0 1/1:8,11:19:15:174,15,0 1/1:12,11:23:21:226,21,0
264
+ 1 103241 . C T 935.40 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=71;Dels=0.00;FS=0.000;HaplotypeScore=0.6934;MLEAC=8;MLEAF=1.00;MQ=21.45;MQ0=32;QD=13.17 GT:AD:DP:GQ:PL 1/1:3,7:10:15:153,15,0 1/1:6,11:17:21:225,21,0 1/1:4,19:23:27:279,27,0 1/1:2,19:21:30:304,30,0
265
+ 1 103250 . G A 382.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.184;DP=65;Dels=0.00;FS=0.000;HaplotypeScore=0.4776;MLEAC=4;MLEAF=0.500;MQ=22.23;MQ0=27;MQRankSum=0.687;QD=5.89;ReadPosRankSum=0.453 GT:AD:DP:GQ:PL 0/1:6,4:10:38:107,0,38 0/1:11,5:16:77:83,0,77 0/1:7,13:20:64:165,0,64 0/1:12,7:19:60:60,0,175
266
+ 1 104033 . T C 977.37 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=79;Dels=0.00;FS=0.000;HaplotypeScore=0.3807;MLEAC=8;MLEAF=1.00;MQ=16.59;MQ0=31;QD=12.37 GT:AD:DP:GQ:PL 1/1:4,11:16:24:216,24,0 1/1:6,17:23:33:302,33,0 1/1:0,18:18:24:244,24,0 1/1:2,20:22:24:241,24,0
267
+ 1 105550 . G A 30.08 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=0.667;AN=6;BaseQRankSum=0.736;DP=106;Dels=0.00;FS=4.771;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.667;MQ=3.78;MQ0=103;MQRankSum=0.736;QD=0.58;ReadPosRankSum=0.736 GT:AD:DP:GQ:PL 1/1:18,2:20:3:29,3,0 ./. 1/1:27,5:32:3:29,3,0 0/0:24,3:27:3:0,3,24
268
+ 1 108365 . A G 255.54 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=24;Dels=0.00;FS=0.000;HaplotypeScore=0.8564;MLEAC=8;MLEAF=1.00;MQ=16.51;MQ0=9;QD=10.65 GT:AD:DP:GQ:PL 1/1:0,3:4:3:28,3,0 1/1:1,5:6:6:57,6,0 1/1:1,4:5:6:52,6,0 1/1:1,8:9:15:143,15,0
269
+ 1 108893 . C T 921.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.480;DP=170;Dels=0.00;FS=0.840;HaplotypeScore=0.8719;MLEAC=4;MLEAF=0.500;MQ=20.61;MQ0=67;MQRankSum=-2.043;QD=5.42;ReadPosRankSum=-0.977 GT:AD:DP:GQ:PL 0/1:24,13:37:99:176,0,312 0/1:29,18:47:99:320,0,249 0/1:22,14:36:99:166,0,268 0/1:33,17:50:99:292,0,357
270
+ 1 109640 . T A 451.71 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=32;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=33.63;MQ0=7;QD=14.12 GT:AD:DP:GQ:PL 1/1:0,10:10:12:127,12,0 1/1:0,5:5:12:128,12,0 1/1:0,9:9:9:86,9,0 1/1:0,8:8:12:136,12,0
271
+ 1 111735 . C A 46.60 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=0.500;AN=8;BaseQRankSum=-0.676;DP=98;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=5.42;MQ0=88;MQRankSum=1.098;QD=0.70;ReadPosRankSum=0.103 GT:AD:DP:GQ:PL 0/1:20,4:24:33:36,0,33 0/0:30,1:31:3:0,3,24 0/1:19,2:21:17:18,0,17 1/1:20,2:22:3:24,3,0
272
+ 1 112021 . G A 235.02 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.356;DP=118;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=8.82;MQ0=93;MQRankSum=-0.246;QD=1.99;ReadPosRankSum=-0.246 GT:AD:DP:GQ:PL 0/1:25,4:29:71:71,0,94 0/1:31,3:35:16:39,0,16 0/1:25,6:31:30:79,0,30 0/1:18,5:23:30:78,0,30
273
+ 1 112326 . A C 151.03 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-2.094;DP=153;Dels=0.00;FS=0.000;HaplotypeScore=0.2447;MLEAC=4;MLEAF=0.500;MQ=7.36;MQ0=128;MQRankSum=-2.257;QD=0.99;ReadPosRankSum=0.354 GT:AD:DP:GQ:PL 0/1:27,3:30:17:17,0,19 0/1:34,10:44:68:68,0,70 0/1:32,9:41:50:50,0,55 0/1:28,9:37:48:48,0,77
274
+ 1 113682 . A G 152.93 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.818;DP=160;Dels=0.00;FS=11.685;HaplotypeScore=0.4413;MLEAC=3;MLEAF=0.375;MQ=8.77;MQ0=119;MQRankSum=2.302;QD=1.19;ReadPosRankSum=0.151 GT:AD:DP:GQ:PL 0/1:46,11:57:67:90,0,67 0/1:32,8:40:26:26,0,95 0/0:29,2:31:27:0,27,204 0/1:22,9:31:69:71,0,69
275
+ 1 113969 . C T 156.31 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=41;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=10.87;MQ0=28;QD=4.74 GT:AD:DP:GQ:PL ./. 1/1:5,8:13:6:49,6,0 1/1:3,4:7:9:73,9,0 1/1:4,9:13:6:59,6,0
276
+ 1 114810 . C T 277.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=64;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=9.36;MQ0=44;QD=4.33 GT:AD:DP:GQ:PL 1/1:9,11:20:18:152,18,0 1/1:9,5:14:6:51,6,0 1/1:5,7:12:3:25,3,0 1/1:7,11:18:9:74,9,0
277
+ 1 115902 . T A 300.02 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.638;DP=175;Dels=0.00;FS=0.000;HaplotypeScore=0.2498;MLEAC=4;MLEAF=0.500;MQ=11.67;MQ0=150;MQRankSum=0.305;QD=1.71;ReadPosRankSum=1.193 GT:AD:DP:GQ:PL 0/1:29,3:32:30:30,0,31 0/1:34,8:42:19:126,0,19 0/1:44,7:51:19:29,0,19 0/1:40,10:50:48:147,0,48
278
+ 1 118318 . A G 179.47 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.625;DP=116;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=9.59;MQ0=96;MQRankSum=-0.567;QD=2.11;ReadPosRankSum=0.567 GT:AD:DP:GQ:PL 0/0:29,2:31:6:0,6,57 0/1:18,7:25:54:85,0,54 0/1:23,14:37:28:111,0,28 0/1:21,2:23:16:16,0,38
279
+ 1 118617 . T C 1736.36 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.565;DP=86;Dels=0.00;FS=0.000;HaplotypeScore=0.8575;MLEAC=8;MLEAF=1.00;MQ=20.13;MQ0=3;MQRankSum=0.397;QD=20.19;ReadPosRankSum=0.856 GT:AD:DP:GQ:PL 1/1:1,21:22:28:360,28,0 1/1:0,24:24:66:567,66,0 1/1:0,17:17:45:384,45,0 1/1:0,23:23:57:451,57,0
280
+ 1 121009 . C T 127.91 PASS AC=6;AF=1.00;AN=6;DP=6;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=47.48;MQ0=1;QD=21.32 GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:64,6,0 1/1:0,1:1:3:29,3,0 1/1:0,3:3:6:59,6,0
281
+ 1 122872 . T G 1040.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=0.428;DP=126;Dels=0.00;FS=1.530;HaplotypeScore=0.3943;MLEAC=4;MLEAF=0.500;MQ=24.15;MQ0=9;MQRankSum=0.842;QD=8.26;ReadPosRankSum=-0.630 GT:AD:DP:GQ:PL 0/1:19,16:35:99:297,0,341 0/1:16,17:33:99:335,0,274 0/1:19,14:33:99:238,0,306 0/1:12,13:25:99:203,0,175
282
+ 1 123143 . C G 180.97 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.741;DP=146;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=9.66;MQ0=125;MQRankSum=2.096;QD=1.24;ReadPosRankSum=-0.533 GT:AD:DP:GQ:PL 0/1:25,5:30:34:83,0,34 0/1:37,4:41:42:42,0,47 0/1:42,5:47:66:66,0,83 0/1:23,5:28:22:22,0,24
283
+ 1 123511 . G A 1085.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=140;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=11.36;MQ0=94;QD=7.75 GT:AD:DP:GQ:PL 1/1:14,13:27:30:247,30,0 1/1:23,15:38:39:321,39,0 1/1:21,12:33:27:222,27,0 1/1:25,17:42:39:321,39,0
284
+ 1 123642 . T G 246.81 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=154;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=5.01;MQ0=142;QD=1.60 GT:AD:DP:GQ:PL 1/1:35,7:42:3:23,3,0 1/1:31,15:46:24:178,24,0 1/1:25,6:31:6:48,6,0 1/1:26,9:35:3:22,3,0
285
+ 1 125976 . C T 30.33 HARD_TO_VALIDATE;LowQual AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=2;MLEAF=1.00;MQ=13.48;MQ0=4;QD=10.11 GT:AD:DP:GQ:PL ./. 1/1:0,3:3:6:55,6,0 ./. ./.
286
+ 1 126113 . C A 917.38 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=47;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=24.30;MQ0=9;QD=19.52 GT:AD:DP:GQ:PL 1/1:0,12:12:30:254,30,0 1/1:0,7:7:21:184,21,0 1/1:0,11:11:18:174,18,0 1/1:0,17:17:33:331,33,0
287
+ 1 127219 . A C 86.96 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.872;DP=143;Dels=0.00;FS=0.000;HaplotypeScore=0.2458;MLEAC=3;MLEAF=0.375;MQ=7.01;MQ0=123;MQRankSum=0.951;QD=0.78;ReadPosRankSum=-0.792 GT:AD:DP:GQ:PL 0/0:27,4:31:9:0,9,72 0/1:28,12:40:30:79,0,30 0/1:24,7:31:29:29,0,76 0/1:32,9:41:12:12,0,60
288
+ 1 127392 . G T 56.84 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.343;DP=146;Dels=0.00;FS=0.000;HaplotypeScore=0.4538;MLEAC=3;MLEAF=0.375;MQ=8.07;MQ0=116;MQRankSum=1.618;QD=0.58;ReadPosRankSum=-1.079 GT:AD:DP:GQ:PL 0/1:32,3:35:51:52,0,51 0/0:45,3:48:6:0,6,181 0/1:24,4:28:9:9,0,78 0/1:32,3:35:28:28,0,76
289
+ 1 127491 . T G 356.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.810;DP=158;Dels=0.00;FS=20.674;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=17.32;MQ0=61;MQRankSum=1.242;QD=2.26;ReadPosRankSum=2.032 GT:AD:DP:GQ:PL 0/1:31,7:38:31:31,0,289 0/1:31,9:40:99:119,0,379 0/1:32,10:42:99:187,0,448 0/1:33,5:38:52:52,0,298
290
+ 1 127573 . G A 796.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.617;DP=203;Dels=0.00;FS=2.322;HaplotypeScore=0.6528;MLEAC=4;MLEAF=0.500;MQ=17.48;MQ0=57;MQRankSum=-1.475;QD=3.93;ReadPosRankSum=1.131 GT:AD:DP:GQ:PL 0/1:35,13:48:99:148,0,388 0/1:42,20:62:99:244,0,539 0/1:33,21:54:99:313,0,413 0/1:26,13:39:99:124,0,237
291
+ 1 127908 . C T 34.15 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=3.194;DP=79;Dels=0.00;FS=0.000;HaplotypeScore=0.2497;MLEAC=3;MLEAF=0.375;MQ=9.46;MQ0=59;MQRankSum=-0.417;QD=0.58;ReadPosRankSum=1.065 GT:AD:DP:GQ:PL 0/0:20,0:20:3:0,3,23 0/1:20,2:22:27:27,0,73 0/1:13,4:17:31:31,0,53 0/1:18,2:20:7:7,0,83
292
+ 1 127972 . G A 124.20 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=3.665;DP=38;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=18.65;MQ0=18;MQRankSum=-2.893;QD=3.27;ReadPosRankSum=-1.350 GT:AD:DP:GQ:PL 0/1:7,2:9:16:16,0,114 0/1:5,5:10:17:17,0,44 0/1:2,7:9:13:87,0,13 0/1:4,6:10:36:36,0,62
293
+ 1 128274 . A C 55.17 HARD_TO_VALIDATE;LowQD AC=4;AF=0.667;AN=6;BaseQRankSum=0.922;DP=82;Dels=0.00;FS=3.680;HaplotypeScore=0.2217;MLEAC=4;MLEAF=0.667;MQ=8.91;MQ0=74;MQRankSum=-2.017;QD=0.77;ReadPosRankSum=-0.421 GT:AD:DP:GQ:PL ./. 0/1:31,4:35:14:14,0,85 0/1:16,4:20:21:44,0,21 1/1:12,5:17:3:26,3,0
294
+ 1 128798 . C T 191.75 PASS AC=7;AF=0.875;AN=8;BaseQRankSum=-1.240;DP=18;Dels=0.00;FS=8.451;HaplotypeScore=0.2235;MLEAC=7;MLEAF=0.875;MQ=21.47;MQ0=3;MQRankSum=-0.744;QD=10.65;ReadPosRankSum=-0.248 GT:AD:DP:GQ:PL 1/1:2,6:8:9:90,9,0 1/1:0,2:2:6:56,6,0 0/1:1,3:4:17:50,0,17 1/1:0,4:4:3:25,3,0
295
+ 1 129285 . G A 1637.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=3.611;DP=137;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=15.04;MQ0=58;MQRankSum=3.590;QD=11.95;ReadPosRankSum=0.877 GT:AD:DP:GQ:PL 1/1:15,27:43:54:467,54,0 1/1:17,18:35:48:425,48,0 1/1:7,17:24:39:338,39,0 1/1:15,20:35:51:433,51,0
296
+ 1 129315 . A G 628.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.566;DP=132;Dels=0.00;FS=7.578;HaplotypeScore=0.2458;MLEAC=4;MLEAF=0.500;MQ=17.93;MQ0=25;MQRankSum=-0.420;QD=4.76;ReadPosRankSum=0.875 GT:AD:DP:GQ:PL 0/1:19,13:32:99:161,0,241 0/1:27,13:40:99:185,0,311 0/1:16,9:25:99:161,0,138 0/1:22,13:35:99:154,0,299
297
+ 1 129692 . T A 39.92 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-0.864;DP=213;Dels=0.00;FS=0.000;HaplotypeScore=3.2499;MLEAC=2;MLEAF=0.250;MQ=18.05;MQ0=30;MQRankSum=-2.039;QD=0.37;ReadPosRankSum=1.640 GT:AD:DP:GQ:PL 0/0:45,7:52:25:0,25,603 0/0:43,10:53:37:0,37,553 0/1:50,12:62:38:38,0,651 0/1:42,4:46:36:36,0,463
298
+ 1 131114 . C T 215.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.387;DP=116;Dels=0.00;FS=0.000;HaplotypeScore=0.7391;MLEAC=4;MLEAF=0.500;MQ=9.29;MQ0=91;MQRankSum=-0.408;QD=1.86;ReadPosRankSum=1.659 GT:AD:DP:GQ:PL 0/1:30,5:35:36:38,0,36 0/1:27,7:34:31:81,0,31 0/1:17,7:24:72:95,0,72 0/1:18,5:23:34:34,0,58
299
+ 1 131552 . G T 106.05 HARD_TO_VALIDATE;LowQD AC=5;AF=0.833;AN=6;BaseQRankSum=-0.742;DP=163;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=5;MLEAF=0.833;MQ=3.91;MQ0=156;MQRankSum=-0.742;QD=0.77;ReadPosRankSum=-0.742 GT:AD:DP:GQ:PL 0/1:47,5:52:17:17,0,18 1/1:41,6:47:6:47,6,0 1/1:35,4:39:9:71,9,0 ./.
300
+ 1 131609 . C A 44.53 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=2.793;DP=140;Dels=0.00;FS=0.000;HaplotypeScore=0.4958;MLEAC=3;MLEAF=0.375;MQ=6.14;MQ0=128;MQRankSum=-0.380;QD=0.38;ReadPosRankSum=0.689 GT:AD:DP:GQ:PL 0/1:39,5:44:16:16,0,43 0/1:35,5:40:39:41,0,39 0/1:30,3:33:19:20,0,19 0/0:21,2:23:6:0,6,53
301
+ 1 133010 . C T 232.54 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=19;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=16.21;MQ0=4;QD=12.24 GT:AD:DP:GQ:PL 1/1:0,10:10:15:128,15,0 1/1:0,2:2:6:53,6,0 1/1:0,3:3:3:26,3,0 1/1:0,4:4:6:50,6,0
302
+ 1 133129 . G A 674.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.773;DP=123;Dels=0.00;FS=1.942;HaplotypeScore=1.7465;MLEAC=4;MLEAF=0.500;MQ=30.82;MQ0=30;MQRankSum=-1.393;QD=5.49;ReadPosRankSum=-1.095 GT:AD:DP:GQ:PL 0/1:21,15:36:99:277,0,328 0/1:17,9:26:99:144,0,272 0/1:22,8:30:99:137,0,355 0/1:20,11:31:99:149,0,303
303
+ 1 133483 . G T 820.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.802;DP=159;Dels=0.00;FS=13.198;HaplotypeScore=1.4575;MLEAC=4;MLEAF=0.500;MQ=23.42;MQ0=65;MQRankSum=-0.787;QD=5.16;ReadPosRankSum=-2.331 GT:AD:DP:GQ:PL 0/1:32,18:50:99:301,0,264 0/1:20,14:34:99:193,0,148 0/1:27,7:34:99:115,0,421 0/1:28,13:41:99:244,0,261
304
+ 1 135040 . T C 974.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.682;DP=132;Dels=0.00;FS=0.000;HaplotypeScore=1.1223;MLEAC=4;MLEAF=0.500;MQ=23.75;MQ0=28;MQRankSum=-1.138;QD=7.39;ReadPosRankSum=-1.046 GT:AD:DP:GQ:PL 0/1:17,12:31:99:212,0,296 0/1:19,20:39:99:339,0,233 0/1:20,11:31:99:225,0,286 0/1:18,13:31:99:231,0,275
305
+ 1 136048 . C T 583.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.219;DP=85;Dels=0.00;FS=1.199;HaplotypeScore=0.2467;MLEAC=4;MLEAF=0.500;MQ=17.63;MQ0=18;MQRankSum=-1.326;QD=6.87;ReadPosRankSum=-0.007 GT:AD:DP:GQ:PL 0/1:8,12:20:61:142,0,61 0/1:12,12:24:99:163,0,140 0/1:6,11:17:51:130,0,51 0/1:11,13:24:68:181,0,68
306
+ 1 136505 . A G 38.55 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=-2.048;DP=49;Dels=0.00;FS=1.805;HaplotypeScore=0.8091;MLEAC=3;MLEAF=0.375;MQ=19.99;MQ0=19;MQRankSum=1.063;QD=1.17;ReadPosRankSum=0.181 GT:AD:DP:GQ:PL 0/0:15,1:16:6:0,6,62 0/1:8,1:11:22:22,0,58 0/1:6,3:9:14:14,0,86 0/1:9,3:13:35:35,0,107
307
+ 1 136506 . C G 92.47 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.284;DP=51;Dels=0.00;FS=1.651;HaplotypeScore=0.6645;MLEAC=3;MLEAF=0.375;MQ=20.50;MQ0=19;MQRankSum=1.066;QD=2.72;ReadPosRankSum=-0.849 GT:AD:DP:GQ:PL 0/0:16,1:17:6:0,6,56 0/1:10,1:11:16:16,0,26 0/1:6,4:10:52:66,0,52 0/1:10,3:13:43:43,0,74
308
+ 1 136603 . A G 106.08 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.817;DP=135;Dels=0.00;FS=1.975;HaplotypeScore=11.0868;MLEAC=3;MLEAF=0.375;MQ=27.05;MQ0=31;MQRankSum=0.050;QD=1.00;ReadPosRankSum=1.329 GT:AD:DP:GQ:PL 0/1:22,8:31:18:18,0,73 0/0:23,6:29:18:0,18,184 0/1:25,12:39:75:75,0,201 0/1:22,12:36:47:47,0,255
309
+ 1 136652 . A G 113.67 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-3.137;DP=118;Dels=0.00;FS=0.000;HaplotypeScore=10.8689;MLEAC=4;MLEAF=0.500;MQ=19.90;MQ0=34;MQRankSum=0.257;QD=0.96;ReadPosRankSum=-0.011 GT:AD:DP:GQ:PL 0/1:14,8:23:16:16,0,27 0/1:19,12:31:24:24,0,209 0/1:21,5:30:6:6,0,126 0/1:23,9:34:99:99,0,120
310
+ 1 136787 . G A 118.36 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=2.543;DP=203;Dels=0.00;FS=21.171;HaplotypeScore=6.1903;MLEAC=2;MLEAF=0.250;MQ=29.91;MQ0=34;MQRankSum=0.937;QD=1.30;ReadPosRankSum=-1.662 GT:AD:DP:GQ:PL 0/1:45,5:50:99:99,0,457 0/0:53,6:59:4:0,4,663 0/0:50,3:53:35:0,35,629 0/1:38,3:41:52:52,0,391
311
+ 1 136817 . T C 148.99 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-5.656;DP=240;Dels=0.00;FS=0.000;HaplotypeScore=4.4363;MLEAC=3;MLEAF=0.375;MQ=26.11;MQ0=48;MQRankSum=1.959;QD=0.77;ReadPosRankSum=-1.428 GT:AD:DP:GQ:PL 0/1:50,11:63:19:19,0,555 0/1:56,13:71:99:102,0,476 0/1:50,10:60:62:62,0,377 0/0:40,5:46:23:0,23,464
312
+ 1 136877 . G A 108.98 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.956;DP=199;Dels=0.00;FS=0.000;HaplotypeScore=7.7005;MLEAC=3;MLEAF=0.375;MQ=25.65;MQ0=30;MQRankSum=1.314;QD=0.78;ReadPosRankSum=-1.814 GT:AD:DP:GQ:PL 0/1:42,8:50:62:62,0,310 0/0:55,5:60:30:0,30,544 0/1:52,6:59:18:18,0,383 0/1:24,6:30:63:63,0,168
313
+ 1 136962 . C T 435.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.991;DP=232;Dels=0.00;FS=5.834;HaplotypeScore=6.9853;MLEAC=4;MLEAF=0.500;MQ=24.34;MQ0=55;MQRankSum=0.023;QD=1.88;ReadPosRankSum=0.144 GT:AD:DP:GQ:PL 0/1:48,16:66:99:118,0,327 0/1:41,19:62:99:135,0,237 0/1:42,17:60:77:77,0,307 0/1:26,15:43:99:138,0,146
314
+ 1 136995 . C T 31.02 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=0.686;DP=196;Dels=0.00;FS=0.000;HaplotypeScore=6.2319;MLEAC=2;MLEAF=0.250;MQ=20.46;MQ0=75;MQRankSum=1.086;QD=0.31;ReadPosRankSum=0.935 GT:AD:DP:GQ:PL 0/1:48,2:50:37:37,0,215 0/0:51,3:59:22:0,22,352 0/1:38,6:50:28:28,0,129 0/0:33,2:37:18:0,18,166
315
+ 1 137123 . T G 99.03 HARD_TO_VALIDATE AC=5;AF=0.833;AN=6;BaseQRankSum=2.534;DP=24;Dels=0.00;FS=0.000;HaplotypeScore=3.1942;MLEAC=5;MLEAF=0.833;MQ=20.14;MQ0=6;MQRankSum=0.884;QD=5.50;ReadPosRankSum=-0.412 GT:AD:DP:GQ:PL 1/1:4,3:7:6:68,6,0 ./. 1/1:0,3:3:3:34,3,0 0/1:4,4:8:25:25,0,54
316
+ 1 137287 . G A 30.54 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=0.500;AN=8;BaseQRankSum=0.701;DP=106;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=8.77;MQ0=86;MQRankSum=-0.289;QD=0.41;ReadPosRankSum=1.196 GT:AD:DP:GQ:PL 0/0:31,1:32:9:0,9,86 0/1:17,3:21:17:17,0,87 1/1:24,2:26:3:27,3,0 0/1:21,6:27:20:20,0,72
317
+ 1 137336 . G A 57.79 HARD_TO_VALIDATE;LowQD AC=6;AF=1.00;AN=6;BaseQRankSum=-1.754;DP=100;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=4.00;MQ0=93;MQRankSum=1.754;QD=0.78;ReadPosRankSum=1.300 GT:AD:DP:GQ:PL 1/1:22,5:27:3:27,3,0 1/1:18,3:21:3:27,3,0 ./. 1/1:19,7:26:3:27,3,0
318
+ 1 137622 . G A 205.78 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=3.293;DP=111;Dels=0.00;FS=0.000;HaplotypeScore=0.2395;MLEAC=5;MLEAF=0.625;MQ=9.64;MQ0=88;MQRankSum=1.385;QD=1.85;ReadPosRankSum=-0.954 GT:AD:DP:GQ:PL 0/1:27,4:31:55:55,0,103 0/1:14,7:21:56:56,0,82 0/1:23,7:30:17:46,0,17 1/1:21,8:29:9:82,9,0
319
+ 1 137825 . G A 1234.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=3.923;DP=124;Dels=0.00;FS=0.000;HaplotypeScore=2.0622;MLEAC=4;MLEAF=0.500;MQ=25.80;MQ0=10;MQRankSum=0.757;QD=9.96;ReadPosRankSum=0.698 GT:AD:DP:GQ:PL 0/1:18,16:34:99:367,0,286 0/1:21,12:33:99:239,0,389 0/1:14,13:27:99:292,0,223 0/1:13,17:30:99:369,0,222
320
+ 1 138156 . G T 450.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=3.274;DP=117;Dels=0.00;FS=2.297;HaplotypeScore=0.9604;MLEAC=4;MLEAF=0.500;MQ=16.42;MQ0=53;MQRankSum=-0.722;QD=3.85;ReadPosRankSum=-2.151 GT:AD:DP:GQ:PL 0/1:26,8:34:64:64,0,254 0/1:25,13:39:99:222,0,324 0/1:9,7:16:85:85,0,85 0/1:18,9:27:57:112,0,57
321
+ 1 139058 . C G 422.32 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-0.684;DP=131;Dels=0.00;FS=0.000;HaplotypeScore=0.8025;MLEAC=3;MLEAF=0.375;MQ=39.65;MQ0=17;MQRankSum=-6.454;QD=4.18;ReadPosRankSum=1.712 GT:AD:DP:GQ:PL 0/0:24,6:30:12:0,12,643 0/1:17,10:27:88:88,0,461 0/1:23,13:36:99:224,0,558 0/1:19,19:38:99:144,0,513
322
+ 1 139781 . G A 153.56 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=20;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=13.92;MQ0=7;QD=8.53 GT:AD:DP:GQ:PL ./. 1/1:0,5:5:3:26,3,0 1/1:0,8:8:12:104,12,0 1/1:0,5:5:6:48,6,0
323
+ 1 139967 . T C 115.39 HARD_TO_VALIDATE AC=5;AF=0.833;AN=6;BaseQRankSum=-0.592;DP=42;Dels=0.00;FS=6.690;HaplotypeScore=0.0000;MLEAC=5;MLEAF=0.833;MQ=13.36;MQ0=26;MQRankSum=1.775;QD=3.61;ReadPosRankSum=-2.451 GT:AD:DP:GQ:PL ./. 1/1:6,7:13:3:34,3,0 1/1:2,6:8:6:69,6,0 0/1:3,8:11:14:40,0,14
324
+ 1 157259 . G A 1029.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.592;DP=111;Dels=0.00;FS=7.876;HaplotypeScore=0.2892;MLEAC=4;MLEAF=0.500;MQ=19.60;MQ0=16;MQRankSum=-0.343;QD=9.28;ReadPosRankSum=0.526 GT:AD:DP:GQ:PL 0/1:14,10:25:99:188,0,182 0/1:15,16:31:99:293,0,217 0/1:14,11:25:99:209,0,179 0/1:12,18:30:99:372,0,113
325
+ 1 165027 . A G 62.22 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-2.793;DP=104;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=6.52;MQ0=92;MQRankSum=0.244;QD=0.60;ReadPosRankSum=2.533 GT:AD:DP:GQ:PL 0/1:20,8:28:16:40,0,16 0/1:23,3:26:19:19,0,19 0/1:19,2:21:19:19,0,19 0/1:21,8:29:16:16,0,40
326
+ 1 167668 . G A 93.43 HARD_TO_VALIDATE;LowQD AC=3;AF=0.500;AN=6;BaseQRankSum=2.843;DP=107;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.500;MQ=7.32;MQ0=95;MQRankSum=0.000;QD=1.09;ReadPosRankSum=-1.813 GT:AD:DP:GQ:PL ./. 0/1:23,8:31:38:66,0,38 0/1:18,4:22:19:19,0,21 0/1:24,9:33:38:38,0,64
327
+ 1 167698 . C T 221.47 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=0.713;DP=129;Dels=0.00;FS=0.000;HaplotypeScore=0.2167;MLEAC=5;MLEAF=0.625;MQ=9.13;MQ0=105;MQRankSum=0.651;QD=1.72;ReadPosRankSum=-0.093 GT:AD:DP:GQ:PL 1/1:23,4:27:3:26,3,0 0/1:28,11:39:51:134,0,51 0/1:21,6:28:39:39,0,41 0/1:26,8:35:54:54,0,106
328
+ 1 167769 . G A 35.37 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=3.712;DP=153;Dels=0.00;FS=0.000;HaplotypeScore=1.0589;MLEAC=3;MLEAF=0.375;MQ=10.78;MQ0=111;MQRankSum=0.641;QD=0.32;ReadPosRankSum=-0.135 GT:AD:DP:GQ:PL 0/1:30,3:33:6:6,0,137 0/1:38,8:46:56:56,0,105 0/1:26,5:31:5:5,0,132 0/0:41,2:43:16:0,16,317
329
+ 1 172877 . G C 60.28 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.984;DP=98;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=8.46;MQ0=83;MQRankSum=-2.835;QD=1.44;ReadPosRankSum=-2.025 GT:AD:DP:GQ:PL 0/0:31,3:34:9:0,9,81 1/1:17,4:21:6:55,6,0 0/0:14,8:22:9:0,9,89 0/1:15,6:21:41:41,0,47
330
+ 1 173098 . C T 429.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=4.288;DP=113;Dels=0.00;FS=0.000;HaplotypeScore=0.4322;MLEAC=4;MLEAF=0.500;MQ=15.11;MQ0=60;MQRankSum=-3.209;QD=3.80;ReadPosRankSum=-0.104 GT:AD:DP:GQ:PL 0/1:15,11:26:89:89,0,92 0/1:23,11:34:99:162,0,106 0/1:17,6:24:47:47,0,222 0/1:14,15:29:82:164,0,82
331
+ 1 174217 . G A 174.08 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=3.510;DP=90;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=9.38;MQ0=72;MQRankSum=-0.400;QD=1.93;ReadPosRankSum=-0.133 GT:AD:DP:GQ:PL 0/1:15,4:20:49:80,0,49 0/1:19,6:25:19:19,0,43 0/1:19,2:21:19:39,0,19 0/1:21,3:24:16:68,0,16
332
+ 1 174302 . G A 57.58 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.383;DP=116;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=5.93;MQ0=106;MQRankSum=-0.741;QD=0.64;ReadPosRankSum=1.447 GT:AD:DP:GQ:PL 0/0:25,1:26:3:0,3,22 0/1:30,6:36:18:18,0,44 1/1:22,5:27:3:27,3,0 0/1:21,6:27:19:44,0,19
333
+ 1 227919 . A T 87.26 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=0.742;DP=14;Dels=0.00;FS=6.990;HaplotypeScore=0.0000;MLEAC=7;MLEAF=0.875;MQ=16.18;MQ0=7;MQRankSum=0.742;QD=6.23;ReadPosRankSum=-0.742 GT:AD:DP:GQ:PL 1/1:0,3:3:3:34,3,0 1/1:0,3:3:3:30,3,0 1/1:0,2:2:3:30,3,0 0/1:1,5:6:20:21,0,20
334
+ 1 229673 . A C 453.20 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=41;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=19.34;MQ0=19;QD=11.05 GT:AD:DP:GQ:PL 1/1:0,8:8:6:58,6,0 1/1:0,14:14:21:210,21,0 1/1:0,7:7:3:28,3,0 1/1:0,12:12:18:182,18,0
335
+ 1 229868 . C T 193.97 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.259;DP=128;Dels=0.00;FS=18.115;HaplotypeScore=1.6735;MLEAC=4;MLEAF=0.500;MQ=25.99;MQ0=20;MQRankSum=-0.551;QD=1.52;ReadPosRankSum=-1.793 GT:AD:DP:GQ:PL 0/1:22,4:26:62:62,0,353 0/1:26,8:34:99:104,0,515 0/1:26,6:32:20:20,0,499 0/1:27,9:36:40:40,0,549
336
+ 1 230047 . A T 657.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.246;DP=124;Dels=0.00;FS=0.000;HaplotypeScore=1.5188;MLEAC=4;MLEAF=0.500;MQ=26.51;MQ0=13;MQRankSum=0.103;QD=5.31;ReadPosRankSum=3.365 GT:AD:DP:GQ:PL 0/1:17,9:26:99:161,0,338 0/1:15,13:28:99:267,0,265 0/1:25,10:35:99:147,0,542 0/1:25,10:35:99:115,0,520
337
+ 1 230058 . T G 2676.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=123;Dels=0.00;FS=0.000;HaplotypeScore=0.4247;MLEAC=8;MLEAF=1.00;MQ=25.00;MQ0=18;QD=21.76 GT:AD:DP:GQ:PL 1/1:0,26:26:66:635,66,0 1/1:0,27:27:63:594,63,0 1/1:0,32:32:75:744,75,0 1/1:0,38:38:78:729,78,0
338
+ 1 231054 . T A 338.90 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-0.386;DP=192;Dels=0.00;FS=1.949;HaplotypeScore=2.4939;MLEAC=3;MLEAF=0.375;MQ=16.76;MQ0=80;MQRankSum=2.301;QD=2.12;ReadPosRankSum=3.705 GT:AD:DP:GQ:PL 0/0:27,5:32:36:0,36,322 0/1:43,10:53:99:136,0,488 0/1:45,11:56:99:135,0,510 0/1:44,7:51:99:102,0,552
339
+ 1 231070 . A T 143.45 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.698;DP=197;Dels=0.00;FS=24.252;HaplotypeScore=0.4314;MLEAC=3;MLEAF=0.375;MQ=18.20;MQ0=53;MQRankSum=-5.929;QD=1.00;ReadPosRankSum=-3.813 GT:AD:DP:GQ:PL 0/1:19,8:27:36:36,0,257 0/1:42,19:61:99:138,0,722 0/1:45,11:56:1:1,0,753 0/0:42,11:53:28:0,28,789
340
+ 1 231091 . G C 192.55 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=5.040;DP=192;Dels=0.00;FS=17.031;HaplotypeScore=1.0694;MLEAC=4;MLEAF=0.500;MQ=16.86;MQ0=62;MQRankSum=-5.583;QD=1.44;ReadPosRankSum=1.377 GT:AD:DP:GQ:PL 0/1:16,11:27:51:51,0,135 0/1:40,18:58:99:156,0,552 0/1:36,13:49:16:16,0,613 0/0:45,13:58:1:0,1,525
341
+ 1 231123 . A G 260.04 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=3.077;DP=221;Dels=0.00;FS=4.823;HaplotypeScore=1.8792;MLEAC=3;MLEAF=0.375;MQ=13.53;MQ0=116;MQRankSum=-4.524;QD=1.71;ReadPosRankSum=2.924 GT:AD:DP:GQ:PL 0/1:33,11:44:54:54,0,111 0/1:41,18:59:99:192,0,271 0/1:35,13:49:46:46,0,368 0/0:57,12:69:4:0,4,559
342
+ 1 231142 . C G 292.05 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.666;DP=233;Dels=0.00;FS=5.057;HaplotypeScore=0.7727;MLEAC=4;MLEAF=0.500;MQ=11.94;MQ0=146;MQRankSum=-2.375;QD=1.25;ReadPosRankSum=0.608 GT:AD:DP:GQ:PL 0/1:40,8:49:57:57,0,86 0/1:55,13:68:99:195,0,244 0/1:41,10:51:58:58,0,272 0/1:58,7:65:14:14,0,415
343
+ 1 231175 . T G 625.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.854;DP=314;Dels=0.00;FS=59.302;HaplotypeScore=1.0238;MLEAC=4;MLEAF=0.500;MQ=10.60;MQ0=228;MQRankSum=0.111;QD=1.99;ReadPosRankSum=-0.805 GT:AD:DP:GQ:PL 0/1:55,14:69:35:35,0,85 0/1:64,34:98:99:325,0,281 0/1:41,19:60:99:177,0,181 0/1:70,17:87:99:121,0,295
344
+ 1 231205 . T A 1267.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.715;DP=388;Dels=0.00;FS=112.989;HaplotypeScore=1.0550;MLEAC=4;MLEAF=0.500;MQ=13.36;MQ0=219;MQRankSum=1.522;QD=3.27;ReadPosRankSum=1.112 GT:AD:DP:GQ:PL 0/1:53,24:79:99:211,0,132 0/1:68,48:116:99:511,0,462 0/1:55,30:85:99:277,0,493 0/1:79,29:108:99:301,0,517
345
+ 1 231214 . C A 1693.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.490;DP=411;Dels=0.00;FS=134.741;HaplotypeScore=1.6632;MLEAC=4;MLEAF=0.500;MQ=14.14;MQ0=211;MQRankSum=2.065;QD=4.12;ReadPosRankSum=-0.877 GT:AD:DP:GQ:PL 0/1:51,34:85:99:370,0,134 0/1:68,53:121:99:570,0,547 0/1:55,37:92:99:393,0,501 0/1:79,34:113:99:393,0,529
346
+ 1 231229 . C A 2104.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.248;DP=428;Dels=0.00;FS=158.513;HaplotypeScore=2.4640;MLEAC=4;MLEAF=0.500;MQ=15.15;MQ0=194;MQRankSum=4.874;QD=4.92;ReadPosRankSum=-1.606 GT:AD:DP:GQ:PL 0/1:52,38:90:99:481,0,190 0/1:63,58:121:99:685,0,554 0/1:54,43:97:99:476,0,584 0/1:79,38:118:99:495,0,604
347
+ 1 231246 . T C 2657.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.163;DP=443;Dels=0.00;FS=180.862;HaplotypeScore=0.8971;MLEAC=4;MLEAF=0.500;MQ=16.32;MQ0=169;MQRankSum=2.022;QD=6.00;ReadPosRankSum=-0.190 GT:AD:DP:GQ:PL 0/1:50,44:94:99:700,0,275 0/1:57,60:117:99:757,0,590 0/1:57,47:104:99:559,0,693 0/1:82,46:128:99:674,0,700
348
+ 1 231296 . C T 199.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.625;DP=382;Dels=0.00;FS=33.695;HaplotypeScore=2.6855;MLEAC=3;MLEAF=0.375;MQ=17.47;MQ0=127;MQRankSum=1.789;QD=0.71;ReadPosRankSum=1.801 GT:AD:DP:GQ:PL 0/0:92,7:99:50:0,50,1402 0/1:90,12:102:48:48,0,1088 0/1:74,10:84:47:47,0,1002 0/1:83,14:97:99:139,0,1093
349
+ 1 231480 . G C 731.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-10.527;DP=477;Dels=0.00;FS=6.608;HaplotypeScore=5.1775;MLEAC=4;MLEAF=0.500;MQ=20.20;MQ0=112;MQRankSum=-1.146;QD=1.53;ReadPosRankSum=1.801 GT:AD:DP:GQ:PL 0/1:91,19:110:99:205,0,1325 0/1:104,32:136:99:226,0,1865 0/1:93,19:112:99:122,0,1657 0/1:95,22:117:99:211,0,1504
350
+ 1 231504 . G A 3721.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=4.992;DP=526;Dels=0.00;FS=1.638;HaplotypeScore=3.6062;MLEAC=4;MLEAF=0.500;MQ=22.19;MQ0=51;MQRankSum=-2.397;QD=7.08;ReadPosRankSum=0.057 GT:AD:DP:GQ:PL 0/1:69,50:119:99:860,0,1198 0/1:85,70:156:99:1190,0,1512 0/1:70,58:128:99:1059,0,1265 0/1:80,43:123:99:645,0,1504
351
+ 1 231526 . C T 1021.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-4.980;DP=486;Dels=0.00;FS=4.227;HaplotypeScore=3.4683;MLEAC=4;MLEAF=0.500;MQ=22.53;MQ0=55;MQRankSum=-0.401;QD=2.10;ReadPosRankSum=-1.011 GT:AD:DP:GQ:PL 0/1:82,27:110:99:352,0,1655 0/1:116,25:141:99:212,0,2265 0/1:99,22:121:99:197,0,2036 0/1:88,26:114:99:293,0,1864
352
+ 1 232501 . A T 268.12 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.898;DP=175;Dels=0.01;FS=26.068;HaplotypeScore=0.7664;MLEAC=4;MLEAF=0.500;MQ=25.58;MQ0=48;MQRankSum=-2.777;QD=1.53;ReadPosRankSum=0.818 GT:AD:DP:GQ:PL 0/1:23,7:30:12:12,0,410 0/1:33,14:47:24:24,0,682 0/1:22,26:48:99:122,0,483 0/1:21,27:48:99:142,0,391
353
+ 1 232648 . C T 121.15 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.151;DP=238;Dels=0.00;FS=10.333;HaplotypeScore=0.2167;MLEAC=3;MLEAF=0.375;MQ=10.03;MQ0=188;MQRankSum=-1.035;QD=0.64;ReadPosRankSum=-0.291 GT:AD:DP:GQ:PL 0/1:42,5:48:15:15,0,102 0/1:61,6:67:41:41,0,277 0/0:41,7:49:18:0,18,177 0/1:65,9:74:99:99,0,211
354
+ 1 232744 . A G 171.94 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.171;DP=324;Dels=0.00;FS=44.471;HaplotypeScore=2.1574;MLEAC=3;MLEAF=0.375;MQ=20.82;MQ0=117;MQRankSum=-2.401;QD=0.71;ReadPosRankSum=-1.637 GT:AD:DP:GQ:PL 0/1:58,8:66:85:85,0,843 0/0:70,11:81:23:0,23,1147 0/1:71,11:82:68:68,0,906 0/1:81,14:95:53:53,0,1102
355
+ 1 232752 . G C 92.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.446;DP=317;Dels=0.00;FS=39.427;HaplotypeScore=2.3769;MLEAC=3;MLEAF=0.375;MQ=21.01;MQ0=121;MQRankSum=-2.894;QD=0.39;ReadPosRankSum=-1.224 GT:AD:DP:GQ:PL 0/1:59,5:64:34:34,0,853 0/0:71,9:80:42:0,42,1098 0/1:72,10:82:62:62,0,948 0/1:79,12:91:31:31,0,1076
356
+ 1 232756 . A G 34.61 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-6.285;DP=312;Dels=0.00;FS=30.832;HaplotypeScore=2.6064;MLEAC=1;MLEAF=0.125;MQ=21.04;MQ0=121;MQRankSum=-2.344;QD=0.44;ReadPosRankSum=-1.149 GT:AD:DP:GQ:PL 0/0:59,4:64:19:0,19,868 0/0:72,7:79:48:0,48,1137 0/1:69,10:79:66:66,0,874 0/0:79,11:90:10:0,10,1084
357
+ 1 232930 . C G 301.42 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.364;DP=355;Dels=0.00;FS=20.434;HaplotypeScore=4.7651;MLEAC=3;MLEAF=0.375;MQ=21.86;MQ0=107;MQRankSum=-4.614;QD=1.04;ReadPosRankSum=-1.944 GT:AD:DP:GQ:PL 0/1:66,16:83:99:100,0,940 0/1:82,14:96:70:70,0,1414 0/0:53,12:65:11:0,11,994 0/1:89,22:111:99:165,0,1576
358
+ 1 232955 . G T 461.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.591;DP=357;Dels=0.00;FS=8.542;HaplotypeScore=39.7716;MLEAC=4;MLEAF=0.500;MQ=22.95;MQ0=71;MQRankSum=-5.146;QD=1.29;ReadPosRankSum=1.488 GT:AD:DP:GQ:PL 0/1:67,18:86:99:126,0,1207 0/1:80,18:98:82:82,0,1693 0/1:50,14:64:34:34,0,987 0/1:84,25:109:99:252,0,1601
359
+ 1 232960 . C A 710.24 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=0.901;DP=358;Dels=0.00;FS=0.570;HaplotypeScore=39.4919;MLEAC=3;MLEAF=0.375;MQ=22.97;MQ0=62;MQRankSum=-0.871;QD=2.60;ReadPosRankSum=-1.935 GT:AD:DP:GQ:PL 0/0:71,14:85:13:0,13,1294 0/1:69,26:95:99:367,0,1362 0/1:51,16:67:99:181,0,893 0/1:83,28:111:99:196,0,1690
360
+ 1 232961 . T C 386.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-4.141;DP=356;Dels=0.00;FS=8.551;HaplotypeScore=40.0524;MLEAC=4;MLEAF=0.500;MQ=23.02;MQ0=60;MQRankSum=-4.779;QD=1.09;ReadPosRankSum=3.943 GT:AD:DP:GQ:PL 0/1:65,19:84:99:129,0,1176 0/1:78,15:93:70:70,0,1665 0/1:53,14:67:28:28,0,1051 0/1:86,23:109:99:192,0,1706
361
+ 1 232962 . G A 384.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.068;DP=357;Dels=0.00;FS=7.350;HaplotypeScore=40.5673;MLEAC=4;MLEAF=0.500;MQ=23.05;MQ0=59;MQRankSum=-4.831;QD=1.08;ReadPosRankSum=4.224 GT:AD:DP:GQ:PL 0/1:66,19:85:99:126,0,1201 0/1:79,15:94:70:70,0,1665 0/1:52,14:67:28:28,0,1033 0/1:87,23:111:99:193,0,1698
362
+ 1 233056 . C G 34.34 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-3.661;DP=266;Dels=0.00;FS=0.000;HaplotypeScore=2.9727;MLEAC=1;MLEAF=0.125;MQ=16.24;MQ0=132;MQRankSum=-3.067;QD=0.56;ReadPosRankSum=1.935 GT:AD:DP:GQ:PL 0/0:59,5:64:78:0,78,742 0/0:57,3:60:49:0,49,692 0/1:52,9:61:66:66,0,430 0/0:75,4:79:51:0,51,938
363
+ 1 233086 . G A 1298.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.855;DP=245;Dels=0.00;FS=9.376;HaplotypeScore=1.2269;MLEAC=4;MLEAF=0.500;MQ=17.57;MQ0=128;MQRankSum=-0.955;QD=5.30;ReadPosRankSum=1.386 GT:AD:DP:GQ:PL 0/1:33,25:58:99:236,0,285 0/1:34,31:65:99:440,0,281 0/1:28,23:51:99:236,0,266 0/1:43,28:71:99:419,0,395
364
+ 1 233913 . A G 60.21 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.350;DP=256;Dels=0.00;FS=5.563;HaplotypeScore=0.4079;MLEAC=3;MLEAF=0.375;MQ=6.52;MQ0=232;MQRankSum=-0.953;QD=0.31;ReadPosRankSum=1.334 GT:AD:DP:GQ:PL 0/0:53,10:63:9:0,9,82 0/1:49,9:58:12:12,0,104 0/1:55,13:68:12:12,0,97 0/1:56,10:66:38:69,0,38
365
+ 1 234378 . A G 611.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-9.587;DP=396;Dels=0.00;FS=7.812;HaplotypeScore=2.5533;MLEAC=4;MLEAF=0.500;MQ=30.27;MQ0=73;MQRankSum=-3.938;QD=1.55;ReadPosRankSum=1.196 GT:AD:DP:GQ:PL 0/1:75,29:104:99:183,0,1613 0/1:88,24:112:99:185,0,2096 0/1:68,23:91:99:116,0,1455 0/1:64,23:87:99:160,0,1343
366
+ 1 234432 . A G 215.90 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-7.042;DP=317;Dels=0.00;FS=46.402;HaplotypeScore=2.4109;MLEAC=3;MLEAF=0.375;MQ=33.26;MQ0=24;MQRankSum=-3.723;QD=0.88;ReadPosRankSum=-3.365 GT:AD:DP:GQ:PL 0/1:64,18:83:74:74,0,1580 0/1:59,15:74:61:61,0,1535 0/0:58,13:71:76:0,76,1557 0/1:67,22:89:99:115,0,1649
367
+ 1 234466 . C T 409.91 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.584;DP=317;Dels=0.00;FS=18.056;HaplotypeScore=2.6981;MLEAC=3;MLEAF=0.375;MQ=31.23;MQ0=44;MQRankSum=-3.368;QD=1.82;ReadPosRankSum=2.504 GT:AD:DP:GQ:PL 0/1:64,12:76:99:165,0,1334 0/1:73,11:84:94:94,0,1476 0/1:52,13:65:99:185,0,967 0/0:80,12:92:30:0,30,1676
368
+ 1 234481 . T A 1828.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.618;DP=317;Dels=0.00;FS=58.108;HaplotypeScore=3.3352;MLEAC=4;MLEAF=0.500;MQ=30.16;MQ0=65;MQRankSum=-3.407;QD=5.77;ReadPosRankSum=3.442 GT:AD:DP:GQ:PL 0/1:42,34:76:99:494,0,895 0/1:42,36:80:99:515,0,864 0/1:40,24:64:99:164,0,855 0/1:52,45:97:99:688,0,797
369
+ 1 234575 . C T 37.33 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=0.338;DP=329;Dels=0.00;FS=49.010;HaplotypeScore=0.9948;MLEAC=1;MLEAF=0.125;MQ=24.28;MQ0=91;MQRankSum=-4.898;QD=0.42;ReadPosRankSum=0.887 GT:AD:DP:GQ:PL 0/0:63,6:69:90:0,90,1411 0/0:64,8:72:73:0,73,1494 0/1:71,16:88:69:69,0,1258 0/0:90,9:99:40:0,40,1552
370
+ 1 234609 . T C 333.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.263;DP=369;Dels=0.00;FS=9.060;HaplotypeScore=4.5467;MLEAC=3;MLEAF=0.375;MQ=25.88;MQ0=84;MQRankSum=2.126;QD=1.21;ReadPosRankSum=0.265 GT:AD:DP:GQ:PL 0/1:63,10:74:99:117,0,1118 0/1:83,13:96:91:91,0,1749 0/0:86,5:92:47:0,47,1584 0/1:91,15:106:99:160,0,1700
371
+ 1 234760 . A T 314.91 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-2.557;DP=204;Dels=0.00;FS=61.961;HaplotypeScore=3.0355;MLEAC=3;MLEAF=0.375;MQ=26.69;MQ0=39;MQRankSum=-3.605;QD=1.89;ReadPosRankSum=-3.067 GT:AD:DP:GQ:PL 0/0:25,11:37:34:0,34,668 0/1:35,19:54:99:115,0,927 0/1:24,25:49:99:191,0,582 0/1:45,18:63:43:43,0,1136
372
+ 1 235012 . G A 555.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.825;DP=274;Dels=0.00;FS=19.891;HaplotypeScore=0.2080;MLEAC=4;MLEAF=0.500;MQ=14.94;MQ0=166;MQRankSum=1.089;QD=2.03;ReadPosRankSum=-1.238 GT:AD:DP:GQ:PL 0/1:57,13:70:99:164,0,336 0/1:73,13:86:99:134,0,611 0/1:38,9:47:87:87,0,272 0/1:57,14:71:99:203,0,282
373
+ 1 235844 . C G 2245.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.452;DP=395;Dels=0.00;FS=3.548;HaplotypeScore=2.5349;MLEAC=4;MLEAF=0.500;MQ=19.25;MQ0=181;MQRankSum=1.141;QD=5.69;ReadPosRankSum=-2.814 GT:AD:DP:GQ:PL 0/1:67,35:104:99:753,0,686 0/1:63,30:93:99:519,0,476 0/1:67,23:90:99:345,0,724 0/1:64,43:107:99:661,0,494
374
+ 1 235929 . G A 837.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=6.671;DP=220;Dels=0.00;FS=49.873;HaplotypeScore=1.1223;MLEAC=4;MLEAF=0.500;MQ=31.15;MQ0=27;MQRankSum=-9.545;QD=3.81;ReadPosRankSum=-0.147 GT:AD:DP:GQ:PL 0/1:33,18:51:99:102,0,846 0/1:38,26:64:99:254,0,911 0/1:28,22:50:99:241,0,686 0/1:30,25:55:99:273,0,743
375
+ 1 235976 . C A 3069.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.045;DP=271;Dels=0.00;FS=3.956;HaplotypeScore=2.1549;MLEAC=4;MLEAF=0.500;MQ=28.73;MQ0=46;MQRankSum=8.503;QD=11.33;ReadPosRankSum=1.000 GT:AD:DP:GQ:PL 0/1:32,34:66:99:908,0,361 0/1:41,27:68:99:625,0,597 0/1:34,21:55:99:558,0,475 0/1:43,39:82:99:1011,0,607
376
+ 1 236793 . T C 142.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.712;DP=316;Dels=0.00;FS=0.000;HaplotypeScore=0.2367;MLEAC=4;MLEAF=0.500;MQ=8.10;MQ0=273;MQRankSum=-0.821;QD=0.45;ReadPosRankSum=-0.654 GT:AD:DP:GQ:PL 0/1:68,12:80:40:40,0,60 0/1:78,10:89:32:32,0,312 0/1:54,9:63:76:76,0,157 0/1:79,5:84:27:27,0,143
377
+ 1 236848 . T C 221.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-3.438;DP=317;Dels=0.00;FS=0.000;HaplotypeScore=1.3662;MLEAC=4;MLEAF=0.500;MQ=10.45;MQ0=244;MQRankSum=0.132;QD=0.70;ReadPosRankSum=2.181 GT:AD:DP:GQ:PL 0/1:66,9:75:49:49,0,174 0/1:80,10:90:93:93,0,394 0/1:57,8:65:82:82,0,296 0/1:75,12:87:30:30,0,302
378
+ 1 237272 . T A 547.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.596;DP=299;Dels=0.00;FS=0.000;HaplotypeScore=3.2050;MLEAC=4;MLEAF=0.500;MQ=22.45;MQ0=43;MQRankSum=-1.986;QD=1.83;ReadPosRankSum=0.229 GT:AD:DP:GQ:PL 0/1:54,11:65:99:148,0,998 0/1:65,16:81:99:217,0,1120 0/1:59,12:71:99:111,0,1294 0/1:69,12:81:99:104,0,1148
379
+ 1 237448 . T G 166.91 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.257;DP=226;Dels=0.00;FS=4.521;HaplotypeScore=3.5900;MLEAC=4;MLEAF=0.500;MQ=18.70;MQ0=96;MQRankSum=-2.139;QD=0.74;ReadPosRankSum=-0.424 GT:AD:DP:GQ:PL 0/1:38,3:45:4:4,0,404 0/1:48,7:61:43:43,0,630 0/1:42,6:54:76:76,0,635 0/1:48,8:66:75:75,0,621
380
+ 1 237490 . C A 382.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.238;DP=201;Dels=0.00;FS=0.821;HaplotypeScore=5.2048;MLEAC=4;MLEAF=0.500;MQ=22.57;MQ0=54;MQRankSum=-1.240;QD=1.91;ReadPosRankSum=0.233 GT:AD:DP:GQ:PL 0/1:35,6:41:52:52,0,565 0/1:50,11:61:95:95,0,697 0/1:44,7:52:99:124,0,596 0/1:36,10:47:99:144,0,570
381
+ 1 237505 . T C 179.92 HARD_TO_VALIDATE AC=2;AF=0.250;AN=8;BaseQRankSum=-3.018;DP=199;Dels=0.00;FS=0.000;HaplotypeScore=3.8204;MLEAC=2;MLEAF=0.250;MQ=23.45;MQ0=50;MQRankSum=1.582;QD=2.04;ReadPosRankSum=-0.505 GT:AD:DP:GQ:PL 0/1:29,7:36:98:98,0,447 0/0:50,4:55:25:0,25,720 0/1:40,10:52:99:116,0,596 0/0:50,5:56:58:0,58,975
382
+ 1 237752 . A G 234.97 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.439;DP=203;Dels=0.00;FS=92.481;HaplotypeScore=2.9828;MLEAC=4;MLEAF=0.500;MQ=27.44;MQ0=21;MQRankSum=-3.539;QD=1.16;ReadPosRankSum=-1.453 GT:AD:DP:GQ:PL 0/1:30,9:39:97:97,0,667 0/1:44,13:57:68:68,0,1015 0/1:42,16:58:82:82,0,933 0/1:42,7:49:20:20,0,889
383
+ 1 237794 . C T 326.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=5.187;DP=295;Dels=0.00;FS=40.713;HaplotypeScore=1.9875;MLEAC=3;MLEAF=0.375;MQ=29.74;MQ0=48;MQRankSum=-0.013;QD=1.48;ReadPosRankSum=-0.633 GT:AD:DP:GQ:PL 0/1:49,8:57:99:119,0,852 0/0:71,3:74:95:0,95,1369 0/1:67,8:75:89:89,0,1103 0/1:79,10:89:99:153,0,1353
384
+ 1 237805 . A G 534.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.015;DP=300;Dels=0.00;FS=0.000;HaplotypeScore=2.5458;MLEAC=4;MLEAF=0.500;MQ=29.26;MQ0=45;MQRankSum=-3.184;QD=1.78;ReadPosRankSum=-2.425 GT:AD:DP:GQ:PL 0/1:43,12:57:99:137,0,852 0/1:63,14:77:49:49,0,1328 0/1:61,15:76:86:86,0,1277 0/1:67,23:90:99:295,0,1438
385
+ 1 237881 . G T 405.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.130;DP=237;Dels=0.00;FS=50.608;HaplotypeScore=3.3633;MLEAC=4;MLEAF=0.500;MQ=28.65;MQ0=44;MQRankSum=-2.356;QD=1.71;ReadPosRankSum=-6.076 GT:AD:DP:GQ:PL 0/1:33,16:49:54:54,0,807 0/1:37,21:59:70:70,0,919 0/1:38,25:63:99:169,0,1005 0/1:46,20:66:99:145,0,1074
386
+ 1 238216 . A C 86.96 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.403;DP=234;Dels=0.00;FS=0.825;HaplotypeScore=2.3781;MLEAC=2;MLEAF=0.250;MQ=21.26;MQ0=51;MQRankSum=-3.446;QD=0.74;ReadPosRankSum=-2.197 GT:AD:DP:GQ:PL 0/0:52,6:58:35:0,35,1135 0/1:47,9:56:84:84,0,739 0/0:49,9:58:19:0,19,996 0/1:49,13:62:37:37,0,1017
387
+ 1 238267 . C T 910.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.839;DP=194;Dels=0.00;FS=0.000;HaplotypeScore=1.5836;MLEAC=4;MLEAF=0.500;MQ=25.70;MQ0=39;MQRankSum=-5.122;QD=4.70;ReadPosRankSum=-1.545 GT:AD:DP:GQ:PL 0/1:27,20:47:99:236,0,609 0/1:32,16:48:99:140,0,783 0/1:27,23:50:99:216,0,620 0/1:26,23:49:99:351,0,508
388
+ 1 239164 . G A 59.20 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.648;DP=129;Dels=0.00;FS=1.859;HaplotypeScore=0.6938;MLEAC=3;MLEAF=0.375;MQ=12.62;MQ0=89;MQRankSum=-1.943;QD=0.55;ReadPosRankSum=-0.551 GT:AD:DP:GQ:PL 0/0:20,0:21:15:0,15,145 0/1:31,8:39:18:18,0,245 0/1:20,7:28:24:24,0,168 0/1:31,10:41:51:51,0,174
389
+ 1 239532 . C T 428.73 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.152;DP=107;Dels=0.00;FS=0.000;HaplotypeScore=1.1146;MLEAC=4;MLEAF=0.500;MQ=12.38;MQ0=73;MQRankSum=0.992;QD=4.01;ReadPosRankSum=-0.430 GT:AD:DP:GQ:PL 0/1:12,7:19:5:121,0,5 0/1:17,11:28:53:134,0,53 0/1:17,12:29:88:91,0,88 0/1:16,15:31:60:114,0,60
390
+ 1 240147 . C T 108.39 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.862;DP=155;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=12.19;MQ0=111;MQRankSum=-0.602;QD=0.70;ReadPosRankSum=1.078 GT:AD:DP:GQ:PL 0/1:33,5:38:36:36,0,117 0/1:38,11:49:39:39,0,319 0/1:18,4:22:62:62,0,119 0/1:42,4:46:2:2,0,199
391
+ 1 240853 . G A 57.95 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.671;DP=166;Dels=0.00;FS=8.789;HaplotypeScore=0.6714;MLEAC=2;MLEAF=0.250;MQ=23.03;MQ0=46;MQRankSum=-3.663;QD=0.75;ReadPosRankSum=0.382 GT:AD:DP:GQ:PL 0/1:29,5:34:39:39,0,536 0/0:45,7:52:20:0,20,783 0/0:34,3:37:66:0,66,660 0/1:31,12:43:53:53,0,499
392
+ 1 240898 . T G 237.93 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-6.776;DP=153;Dels=0.00;FS=15.219;HaplotypeScore=0.7169;MLEAC=3;MLEAF=0.375;MQ=19.27;MQ0=65;MQRankSum=-3.215;QD=1.86;ReadPosRankSum=2.075 GT:AD:DP:GQ:PL 0/1:27,13:40:99:139,0,397 0/1:41,12:53:44:44,0,524 0/0:21,4:25:24:0,24,239 0/1:26,9:35:89:89,0,273
393
+ 1 241263 . C T 123.91 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=5.364;DP=160;Dels=0.00;FS=11.735;HaplotypeScore=3.0928;MLEAC=3;MLEAF=0.375;MQ=29.30;MQ0=6;MQRankSum=-1.004;QD=1.08;ReadPosRankSum=-1.950 GT:AD:DP:GQ:PL 0/1:21,3:24:34:34,0,357 0/0:40,5:45:37:0,37,962 0/1:46,5:51:28:28,0,932 0/1:32,8:40:96:96,0,650
394
+ 1 241369 . C T 1204.39 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=66;Dels=0.00;FS=0.000;HaplotypeScore=1.5471;MLEAC=8;MLEAF=1.00;MQ=26.78;MQ0=16;QD=18.25 GT:AD:DP:GQ:PL 1/1:0,12:12:15:160,15,0 1/1:0,13:13:24:235,24,0 1/1:0,15:15:33:340,33,0 1/1:0,25:25:48:495,48,0
395
+ 1 242426 . G A 191.05 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.330;DP=148;Dels=0.00;FS=11.247;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=11.21;MQ0=113;MQRankSum=-0.678;QD=1.29;ReadPosRankSum=-1.338 GT:AD:DP:GQ:PL 0/1:30,7:37:66:95,0,66 0/1:25,5:30:14:14,0,212 0/1:32,11:43:54:54,0,140 0/1:32,6:38:60:60,0,115
396
+ 1 243396 . A G 147.70 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-6.752;DP=199;Dels=0.00;FS=0.000;HaplotypeScore=1.0286;MLEAC=3;MLEAF=0.375;MQ=16.06;MQ0=78;MQRankSum=-0.003;QD=0.98;ReadPosRankSum=-0.241 GT:AD:DP:GQ:PL 0/0:43,5:49:9:0,9,554 0/1:45,10:55:86:86,0,498 0/1:39,10:49:45:45,0,501 0/1:38,8:46:50:50,0,428
397
+ 1 244272 . T A 74.33 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.779;DP=186;Dels=0.00;FS=2.650;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=15.47;MQ0=102;MQRankSum=0.655;QD=0.40;ReadPosRankSum=0.866 GT:AD:DP:GQ:PL 0/1:40,10:50:25:25,0,427 0/1:44,13:57:65:65,0,519 0/1:32,6:38:3:3,0,372 0/1:39,2:41:12:12,0,314
398
+ 1 244288 . A G 339.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-4.014;DP=151;Dels=0.00;FS=0.000;HaplotypeScore=0.2416;MLEAC=4;MLEAF=0.500;MQ=14.20;MQ0=93;MQRankSum=-0.361;QD=2.25;ReadPosRankSum=0.393 GT:AD:DP:GQ:PL 0/1:24,15:39:99:109,0,136 0/1:31,20:51:99:160,0,308 0/1:22,8:30:74:74,0,193 0/1:25,6:31:29:29,0,160
399
+ 1 245268 . T A 142.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.116;DP=141;Dels=0.00;FS=4.630;HaplotypeScore=2.7232;MLEAC=3;MLEAF=0.375;MQ=20.53;MQ0=32;MQRankSum=-3.389;QD=1.35;ReadPosRankSum=-0.858 GT:AD:DP:GQ:PL 0/1:27,5:32:55:55,0,374 0/0:32,3:35:28:0,28,613 0/1:30,9:39:74:74,0,534 0/1:29,6:35:48:48,0,540
400
+ 1 245328 . A G 304.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-4.120;DP=113;Dels=0.00;FS=10.151;HaplotypeScore=17.4569;MLEAC=4;MLEAF=0.500;MQ=21.99;MQ0=22;MQRankSum=-2.860;QD=2.70;ReadPosRankSum=-0.869 GT:AD:DP:GQ:PL 0/1:15,6:21:90:90,0,112 0/1:23,5:28:49:49,0,360 0/1:28,8:36:80:80,0,525 0/1:21,7:28:99:118,0,375
401
+ 1 245894 . G A 129.35 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=4.488;DP=181;Dels=0.00;FS=2.602;HaplotypeScore=1.3879;MLEAC=3;MLEAF=0.375;MQ=10.32;MQ0=127;MQRankSum=-1.993;QD=0.92;ReadPosRankSum=1.378 GT:AD:DP:GQ:PL 0/1:34,9:43:68:68,0,162 0/1:36,6:42:21:21,0,163 0/0:33,8:41:12:0,12,109 0/1:41,14:55:74:74,0,151
402
+ 1 246977 . A C 261.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.761;DP=229;Dels=0.00;FS=0.000;HaplotypeScore=0.1663;MLEAC=4;MLEAF=0.500;MQ=10.49;MQ0=164;MQRankSum=-1.935;QD=1.14;ReadPosRankSum=-0.047 GT:AD:DP:GQ:PL 0/1:40,18:58:99:140,0,240 0/1:40,15:55:44:44,0,162 0/1:37,14:51:53:53,0,78 0/1:43,22:65:57:57,0,211
403
+ 1 247428 . G T 1041.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.738;DP=191;Dels=0.00;FS=1.438;HaplotypeScore=1.8617;MLEAC=4;MLEAF=0.500;MQ=22.23;MQ0=42;MQRankSum=0.458;QD=5.46;ReadPosRankSum=0.097 GT:AD:DP:GQ:PL 0/1:26,12:39:99:164,0,392 0/1:21,15:36:99:159,0,361 0/1:36,21:58:99:377,0,581 0/1:30,28:58:99:374,0,455
404
+ 1 247585 . G A 361 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.794;DP=177;Dels=0.00;FS=63.132;HaplotypeScore=3.2009;MLEAC=4;MLEAF=0.500;MQ=23.32;MQ0=50;MQRankSum=-2.882;QD=2.04;ReadPosRankSum=-1.148 GT:AD:DP:GQ:PL 0/1:21,2:23:17:17,0,275 0/1:30,14:44:99:171,0,474 0/1:40,13:53:99:155,0,607 0/1:46,11:57:50:50,0,821
405
+ 1 248705 . G T 282.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.986;DP=199;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=11.65;MQ0=136;MQRankSum=-0.258;QD=1.42;ReadPosRankSum=-0.450 GT:AD:DP:GQ:PL 0/1:29,13:42:30:30,0,132 0/1:50,10:60:53:53,0,291 0/1:36,15:51:99:178,0,154 0/1:40,6:46:54:54,0,262
406
+ 1 249558 . C T 54.49 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=3.826;DP=129;Dels=0.00;FS=68.386;HaplotypeScore=1.1506;MLEAC=2;MLEAF=0.250;MQ=19.26;MQ0=46;MQRankSum=-3.840;QD=0.80;ReadPosRankSum=-3.015 GT:AD:DP:GQ:PL 0/0:14,5:19:30:0,30,285 0/0:38,4:42:29:0,29,611 0/1:23,5:28:6:6,0,312 0/1:29,11:40:81:81,0,379
407
+ 1 249702 . G A 410.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.528;DP=181;Dels=0.00;FS=0.884;HaplotypeScore=2.6293;MLEAC=4;MLEAF=0.500;MQ=23.73;MQ0=37;MQRankSum=-5.972;QD=2.27;ReadPosRankSum=-1.403 GT:AD:DP:GQ:PL 0/1:29,17:46:99:128,0,573 0/1:25,15:40:99:137,0,465 0/1:33,11:44:94:94,0,682 0/1:37,14:51:84:84,0,726
408
+ 1 253129 . G C 401.07 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.234;DP=201;Dels=0.00;FS=25.347;HaplotypeScore=0.7048;MLEAC=3;MLEAF=0.375;MQ=21.05;MQ0=84;MQRankSum=-0.483;QD=2.67;ReadPosRankSum=2.124 GT:AD:DP:GQ:PL 0/1:43,6:50:93:93,0,408 0/1:32,13:45:99:196,0,380 0/0:47,4:51:16:0,16,644 0/1:42,13:55:99:146,0,642
409
+ 1 253779 . C A 131.38 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.197;DP=176;Dels=0.00;FS=0.000;HaplotypeScore=0.6999;MLEAC=3;MLEAF=0.375;MQ=9.64;MQ0=148;MQRankSum=0.590;QD=0.93;ReadPosRankSum=0.787 GT:AD:DP:GQ:PL 0/0:26,9:35:6:0,6,59 0/1:36,9:45:29:29,0,207 0/1:35,10:45:44:44,0,74 0/1:43,8:51:91:91,0,120
410
+ 1 255633 . A G 708.51 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=78;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=14.86;MQ0=26;QD=9.08 GT:AD:DP:GQ:PL 1/1:0,19:19:18:176,18,0 1/1:0,20:21:27:252,27,0 1/1:0,18:18:9:80,9,0 1/1:0,20:20:24:226,24,0
411
+ 1 256498 . A G 1206.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=2.700;DP=245;Dels=0.00;FS=0.000;HaplotypeScore=2.2717;MLEAC=4;MLEAF=0.500;MQ=23.92;MQ0=11;MQRankSum=0.260;QD=4.93;ReadPosRankSum=0.736 GT:AD:DP:GQ:PL 0/1:40,12:52:99:133,0,873 0/1:44,17:61:99:268,0,975 0/1:39,17:56:99:315,0,863 0/1:45,30:75:99:523,0,920
412
+ 1 256736 . C T 685.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=7.325;DP=218;Dels=0.00;FS=0.000;HaplotypeScore=2.0460;MLEAC=4;MLEAF=0.500;MQ=19.47;MQ0=89;MQRankSum=0.305;QD=3.15;ReadPosRankSum=0.507 GT:AD:DP:GQ:PL 0/1:37,6:43:64:64,0,375 0/1:37,14:51:99:179,0,538 0/1:40,11:51:99:117,0,488 0/1:52,21:73:99:358,0,542
413
+ 1 256922 . T A 636.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.161;DP=209;Dels=0.00;FS=17.678;HaplotypeScore=0.3943;MLEAC=4;MLEAF=0.500;MQ=16.82;MQ0=132;MQRankSum=-0.982;QD=3.05;ReadPosRankSum=0.774 GT:AD:DP:GQ:PL 0/1:34,13:47:99:221,0,104 0/1:49,14:63:99:144,0,359 0/1:29,11:40:93:155,0,93 0/1:50,9:59:99:149,0,476
414
+ 1 257686 . A G 223.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.119;DP=142;Dels=0.00;FS=20.896;HaplotypeScore=0.6596;MLEAC=4;MLEAF=0.500;MQ=17.69;MQ0=99;MQRankSum=0.463;QD=1.58;ReadPosRankSum=-0.198 GT:AD:DP:GQ:PL 0/1:25,6:31:33:33,0,193 0/1:23,9:32:87:87,0,164 0/1:27,9:36:82:82,0,131 0/1:33,10:43:54:54,0,275
415
+ 1 257881 . T C 360.33 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.714;DP=198;Dels=0.00;FS=5.610;HaplotypeScore=1.2720;MLEAC=3;MLEAF=0.375;MQ=18.40;MQ0=76;MQRankSum=-0.771;QD=2.52;ReadPosRankSum=0.333 GT:AD:DP:GQ:PL 0/1:35,6:41:10:10,0,363 0/0:49,6:55:29:0,29,641 0/1:38,12:50:99:133,0,455 0/1:34,17:52:99:251,0,443
416
+ 1 258930 . C T 915.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=101;Dels=0.00;FS=0.000;HaplotypeScore=0.6905;MLEAC=8;MLEAF=1.00;MQ=12.68;MQ0=42;QD=9.06 GT:AD:DP:GQ:PL 1/1:0,18:18:24:187,24,0 1/1:0,26:26:36:283,36,0 1/1:0,32:32:30:237,30,0 1/1:0,23:23:30:234,30,0
417
+ 1 356416 . G A 73.22 HARD_TO_VALIDATE AC=2;AF=0.333;AN=6;BaseQRankSum=1.369;DP=36;Dels=0.00;FS=0.000;HaplotypeScore=0.2447;MLEAC=2;MLEAF=0.333;MQ=11.03;MQ0=21;MQRankSum=0.660;QD=2.93;ReadPosRankSum=-1.200 GT:AD:DP:GQ:PL 0/1:9,2:11:16:40,0,16 0/1:8,6:14:13:62,0,13 ./. 0/0:5,0:5:3:0,3,25
418
+ 1 364272 . C A 78.99 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.679;DP=93;Dels=0.00;FS=13.084;HaplotypeScore=0.4547;MLEAC=3;MLEAF=0.375;MQ=12.20;MQ0=63;MQRankSum=-1.539;QD=1.10;ReadPosRankSum=-1.493 GT:AD:DP:GQ:PL 0/1:19,2:21:19:19,0,46 0/0:16,5:21:27:0,27,244 0/1:17,7:24:19:46,0,19 0/1:23,4:27:48:48,0,191
419
+ 1 364378 . T G 84.33 HARD_TO_VALIDATE;LowQD AC=6;AF=1.00;AN=6;DP=79;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=5.01;MQ0=75;QD=1.22 GT:AD:DP:GQ:PL ./. 1/1:15,8:23:3:27,3,0 1/1:12,5:17:3:28,3,0 1/1:23,6:29:6:53,6,0
420
+ 1 384435 . C G 51.32 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.113;DP=222;Dels=0.00;FS=0.000;HaplotypeScore=1.5197;MLEAC=2;MLEAF=0.250;MQ=7.33;MQ0=185;MQRankSum=-0.283;QD=0.44;ReadPosRankSum=1.491 GT:AD:DP:GQ:PL 0/1:58,11:69:16:70,0,16 0/1:43,5:48:13:13,0,85 0/0:51,0:51:12:0,12,112 0/0:46,8:54:3:0,3,43
421
+ 1 384512 . C G 44.07 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=0.500;AN=8;BaseQRankSum=2.259;DP=330;Dels=0.00;FS=0.000;HaplotypeScore=0.1663;MLEAC=4;MLEAF=0.500;MQ=5.91;MQ0=274;MQRankSum=1.189;QD=0.17;ReadPosRankSum=-0.775 GT:AD:DP:GQ:PL 0/1:84,9:97:10:10,0,119 0/1:82,5:88:13:13,0,91 0/0:63,6:69:12:0,12,117 1/1:71,5:76:6:56,6,0
422
+ 1 404409 . T G 57.51 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=0.998;DP=47;Dels=0.00;FS=0.000;HaplotypeScore=0.1446;MLEAC=2;MLEAF=0.250;MQ=16.51;MQ0=31;MQRankSum=-1.418;QD=2.30;ReadPosRankSum=-0.788 GT:AD:DP:GQ:PL 0/0:10,1:11:6:0,6,53 0/0:9,2:11:9:0,9,103 0/1:7,2:9:27:57,0,27 1/1:12,4:16:3:34,3,0
423
+ 1 404428 . C T 34.02 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.500;AN=6;BaseQRankSum=-0.387;DP=38;Dels=0.00;FS=0.000;HaplotypeScore=0.9048;MLEAC=2;MLEAF=0.333;MQ=16.72;MQ0=25;MQRankSum=-1.532;QD=1.48;ReadPosRankSum=1.932 GT:AD:DP:GQ:PL ./. 0/0:9,1:10:9:0,9,98 0/1:7,1:8:31:31,0,31 1/1:9,6:15:3:34,3,0
424
+ 1 404664 . G T 173.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.107;DP=117;Dels=0.02;FS=13.776;HaplotypeScore=4.9500;MLEAC=4;MLEAF=0.500;MQ=20.37;MQ0=52;MQRankSum=0.959;QD=1.49;ReadPosRankSum=-0.779 GT:AD:DP:GQ:PL 0/1:23,2:25:43:43,0,111 0/1:34,2:36:35:35,0,265 0/1:25,4:29:46:46,0,180 0/1:20,5:25:52:82,0,52
425
+ 1 404672 . G A 144 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-2.370;DP=110;Dels=0.00;FS=10.788;HaplotypeScore=2.2250;MLEAC=4;MLEAF=0.500;MQ=21.01;MQ0=45;MQRankSum=0.959;QD=1.31;ReadPosRankSum=-0.861 GT:AD:DP:GQ:PL 0/1:23,3:26:17:17,0,113 0/1:32,2:34:34:34,0,258 0/1:22,4:26:40:40,0,176 0/1:19,5:24:51:85,0,51
426
+ 1 404734 . A G 41.79 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-1.016;DP=93;Dels=0.00;FS=0.000;HaplotypeScore=0.8895;MLEAC=2;MLEAF=0.250;MQ=16.18;MQ0=61;MQRankSum=-0.113;QD=0.87;ReadPosRankSum=-0.384 GT:AD:DP:GQ:PL 0/0:18,2:20:9:0,9,93 0/1:23,2:25:19:19,0,119 0/1:20,3:23:47:56,0,47 0/0:22,2:24:12:0,12,132
427
+ 1 404971 . T C 56.82 HARD_TO_VALIDATE AC=3;AF=0.500;AN=6;BaseQRankSum=-0.731;DP=38;Dels=0.00;FS=0.000;HaplotypeScore=0.4663;MLEAC=3;MLEAF=0.500;MQ=15.08;MQ0=28;MQRankSum=-2.166;QD=2.58;ReadPosRankSum=-0.296 GT:AD:DP:GQ:PL ./. 1/1:11,3:14:3:33,3,0 0/0:9,2:11:6:0,6,69 0/1:5,3:8:23:54,0,23
428
+ 1 404974 . A G 55.82 HARD_TO_VALIDATE AC=3;AF=0.500;AN=6;BaseQRankSum=-1.133;DP=38;Dels=0.00;FS=0.000;HaplotypeScore=0.4663;MLEAC=3;MLEAF=0.500;MQ=14.90;MQ0=28;MQRankSum=0.000;QD=2.33;ReadPosRankSum=1.568 GT:AD:DP:GQ:PL ./. 1/1:12,2:14:3:33,3,0 0/0:8,1:9:6:0,6,68 0/1:8,2:10:24:53,0,24
429
+ 1 449336 . C T 62.68 HARD_TO_VALIDATE;LowQD AC=3;AF=0.750;AN=4;BaseQRankSum=-1.380;DP=120;Dels=0.00;FS=0.000;HaplotypeScore=0.3943;MLEAC=3;MLEAF=0.750;MQ=5.00;MQ0=114;MQRankSum=0.720;QD=0.99;ReadPosRankSum=0.720 GT:AD:DP:GQ:PL 0/1:36,2:39:19:19,0,21 ./. ./. 1/1:17,7:24:6:71,6,0
430
+ 1 521603 . G A 183.58 PASS AC=3;AF=0.375;AN=8;BaseQRankSum=7.037;DP=172;Dels=0.00;FS=2.753;HaplotypeScore=0.7947;MLEAC=3;MLEAF=0.375;MQ=23.01;MQ0=17;MQRankSum=-4.164;QD=1.58;ReadPosRankSum=-0.180 GT:AD:DP:GQ:PL 0/1:28,9:37:83:83,0,425 0/0:50,6:56:10:0,10,980 0/1:35,6:41:21:21,0,760 0/1:29,9:38:99:113,0,533
431
+ 1 523471 . T C 133.54 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=27;Dels=0.00;FS=0.000;HaplotypeScore=0.2167;MLEAC=6;MLEAF=0.750;MQ=14.54;MQ0=14;QD=4.95 GT:AD:DP:GQ:PL 1/1:0,3:3:6:52,6,0 1/1:0,8:9:3:29,3,0 1/1:0,10:10:9:76,9,0 1/1:0,5:5:3:27,3,0
432
+ 1 523825 . C T 268.16 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=5.314;DP=198;Dels=0.00;FS=0.760;HaplotypeScore=2.1034;MLEAC=4;MLEAF=0.500;MQ=20.50;MQ0=30;MQRankSum=1.049;QD=1.35;ReadPosRankSum=0.361 GT:AD:DP:GQ:PL 0/1:41,10:51:95:95,0,594 0/1:34,6:40:11:11,0,684 0/1:43,13:57:99:166,0,751 0/1:42,7:50:28:28,0,683
433
+ 1 523948 . C T 84.07 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.134;DP=146;Dels=0.00;FS=18.761;HaplotypeScore=0.9295;MLEAC=2;MLEAF=0.250;MQ=12.42;MQ0=101;MQRankSum=-1.024;QD=1.20;ReadPosRankSum=0.638 GT:AD:DP:GQ:PL 0/0:34,2:36:14:0,14,333 0/0:36,4:40:6:0,6,256 0/1:26,4:30:42:42,0,44 0/1:33,7:40:75:75,0,164
434
+ 1 526057 . T C 747.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-4.094;DP=89;Dels=0.00;FS=0.000;HaplotypeScore=0.9548;MLEAC=4;MLEAF=0.500;MQ=46.12;MQ0=11;MQRankSum=0.965;QD=8.40;ReadPosRankSum=-1.165 GT:AD:DP:GQ:PL 0/1:13,12:25:99:204,0,122 0/1:10,11:21:99:237,0,210 0/1:9,4:13:63:63,0,169 0/1:15,14:29:99:276,0,267
435
+ 1 533197 . A G 33.02 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=-0.078;DP=157;Dels=0.00;FS=20.720;HaplotypeScore=2.7253;MLEAC=3;MLEAF=0.375;MQ=35.46;MQ0=42;MQRankSum=-0.987;QD=0.27;ReadPosRankSum=-3.060 GT:AD:DP:GQ:PL 0/1:38,4:43:28:28,0,502 0/1:32,2:34:21:21,0,371 0/0:34,0:34:75:0,75,776 0/1:40,6:46:18:18,0,635
436
+ 1 533300 . G A 187.16 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.845;DP=253;Dels=0.00;FS=0.000;HaplotypeScore=0.9487;MLEAC=4;MLEAF=0.500;MQ=13.28;MQ0=190;MQRankSum=0.297;QD=0.74;ReadPosRankSum=-1.945 GT:AD:DP:GQ:PL 0/1:67,2:69:12:12,0,177 0/1:65,7:72:84:84,0,247 0/1:44,4:48:18:18,0,105 0/1:59,5:64:99:105,0,145
437
+ 1 533958 . G A 255.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=5.297;DP=487;Dels=0.00;FS=0.000;HaplotypeScore=0.5809;MLEAC=4;MLEAF=0.500;MQ=8.11;MQ0=420;MQRankSum=2.058;QD=0.53;ReadPosRankSum=-2.511 GT:AD:DP:GQ:PL 0/1:95,7:103:55:55,0,71 0/1:141,12:153:86:86,0,159 0/1:117,11:129:35:76,0,35 0/1:96,5:102:71:71,0,175
438
+ 1 534005 . G A 903.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=7.924;DP=488;Dels=0.00;FS=0.000;HaplotypeScore=3.7854;MLEAC=4;MLEAF=0.500;MQ=12.99;MQ0=346;MQRankSum=-0.595;QD=1.85;ReadPosRankSum=0.424 GT:AD:DP:GQ:PL 0/1:79,29:110:99:181,0,185 0/1:107,42:151:99:318,0,239 0/1:89,36:126:99:141,0,141 0/1:54,47:101:99:296,0,245
439
+ 1 534043 . G A 829.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.141;DP=354;Dels=0.00;FS=0.000;HaplotypeScore=7.4218;MLEAC=4;MLEAF=0.500;MQ=15.71;MQ0=216;MQRankSum=0.505;QD=2.34;ReadPosRankSum=2.786 GT:AD:DP:GQ:PL 0/1:61,27:91:99:179,0,213 0/1:52,52:105:99:314,0,210 0/1:55,26:83:99:123,0,152 0/1:52,23:75:99:246,0,220
440
+ 1 534052 . G A 46.06 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=3.685;DP=337;Dels=0.00;FS=0.000;HaplotypeScore=7.9977;MLEAC=2;MLEAF=0.250;MQ=16.07;MQ0=209;MQRankSum=-2.009;QD=0.27;ReadPosRankSum=1.235 GT:AD:DP:GQ:PL 0/0:80,10:91:30:0,30,468 0/1:71,25:97:63:63,0,442 0/0:62,14:76:30:0,30,280 0/1:61,11:73:17:17,0,476
441
+ 1 534082 . A G 328.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.936;DP=267;Dels=0.00;FS=0.000;HaplotypeScore=3.0188;MLEAC=4;MLEAF=0.500;MQ=14.15;MQ0=188;MQRankSum=0.822;QD=1.23;ReadPosRankSum=1.787 GT:AD:DP:GQ:PL 0/1:63,17:80:99:121,0,181 0/1:54,13:67:97:97,0,205 0/1:56,8:64:82:82,0,114 0/1:47,9:56:61:61,0,210
442
+ 1 534166 . T G 258.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-4.139;DP=288;Dels=0.00;FS=17.636;HaplotypeScore=0.6086;MLEAC=4;MLEAF=0.500;MQ=21.54;MQ0=126;MQRankSum=-0.635;QD=0.90;ReadPosRankSum=0.830 GT:AD:DP:GQ:PL 0/1:42,30:72:99:117,0,443 0/1:65,18:83:29:29,0,659 0/1:54,20:74:49:49,0,402 0/1:45,14:59:96:96,0,435
443
+ 1 534192 . C T 93.38 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.471;DP=348;Dels=0.00;FS=0.623;HaplotypeScore=9.7995;MLEAC=3;MLEAF=0.375;MQ=27.61;MQ0=108;MQRankSum=-4.523;QD=0.38;ReadPosRankSum=0.940 GT:AD:DP:GQ:PL 0/1:66,13:79:25:25,0,886 0/0:81,22:103:6:0,6,1000 0/1:70,23:94:57:57,0,931 0/1:50,21:71:44:44,0,843
444
+ 1 534198 . C T 98.46 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=6.327;DP=367;Dels=0.00;FS=0.947;HaplotypeScore=10.5753;MLEAC=1;MLEAF=0.125;MQ=28.30;MQ0=105;MQRankSum=-3.750;QD=1.19;ReadPosRankSum=-0.237 GT:AD:DP:GQ:PL 0/1:64,19:83:99:130,0,847 0/0:88,15:103:95:0,95,1218 0/0:88,11:99:33:0,33,1084 0/0:73,8:81:13:0,13,1032
445
+ 1 534545 . G A 277.68 PASS AC=3;AF=0.375;AN=8;BaseQRankSum=4.805;DP=190;Dels=0.00;FS=1.807;HaplotypeScore=5.8881;MLEAC=3;MLEAF=0.375;MQ=42.43;MQ0=9;MQRankSum=-4.122;QD=1.90;ReadPosRankSum=-0.479 GT:AD:DP:GQ:PL 0/1:29,9:38:89:89,0,733 0/0:37,7:44:5:0,5,870 0/1:42,13:55:99:115,0,1119 0/1:43,10:53:99:106,0,1122
446
+ 1 536095 . C T 40.29 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=5.698;DP=151;Dels=0.00;FS=3.089;HaplotypeScore=1.5344;MLEAC=2;MLEAF=0.250;MQ=26.31;MQ0=21;MQRankSum=-4.633;QD=0.38;ReadPosRankSum=-1.008 GT:AD:DP:GQ:PL 0/1:29,9:39:4:4,0,632 0/1:29,7:36:1:1,0,664 0/1:23,8:31:65:65,0,289 0/0:39,6:45:84:0,84,773
447
+ 1 536147 . G T 47.33 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=0.500;AN=8;BaseQRankSum=-1.297;DP=205;Dels=0.00;FS=7.497;HaplotypeScore=2.9480;MLEAC=4;MLEAF=0.500;MQ=28.47;MQ0=30;MQRankSum=-0.537;QD=0.23;ReadPosRankSum=2.406 GT:AD:DP:GQ:PL 0/1:46,5:52:20:20,0,745 0/1:38,5:43:10:10,0,744 0/1:58,5:63:15:15,0,1084 0/1:42,4:47:34:34,0,665
448
+ 1 536190 . C T 35.34 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=0.689;DP=192;Dels=0.00;FS=10.563;HaplotypeScore=2.3297;MLEAC=1;MLEAF=0.125;MQ=28.38;MQ0=29;MQRankSum=-2.342;QD=0.84;ReadPosRankSum=-0.925 GT:AD:DP:GQ:PL 0/0:39,5:44:32:0,32,822 0/1:36,6:42:67:67,0,665 0/0:67,3:70:99:0,144,1534 0/0:30,6:36:40:0,40,628
449
+ 1 536208 . T A 30.39 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=0.175;DP=154;Dels=0.00;FS=1.623;HaplotypeScore=3.6779;MLEAC=1;MLEAF=0.125;MQ=28.55;MQ0=20;MQRankSum=-0.076;QD=1.09;ReadPosRankSum=-4.027 GT:AD:DP:GQ:PL 0/0:37,1:38:81:0,81,834 0/0:32,2:34:17:0,17,693 0/0:50,3:53:36:0,36,1045 0/1:25,3:28:62:62,0,367
450
+ 1 536673 . G A 81.93 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.599;DP=177;Dels=0.00;FS=18.163;HaplotypeScore=0.4314;MLEAC=2;MLEAF=0.250;MQ=16.59;MQ0=86;MQRankSum=1.181;QD=0.85;ReadPosRankSum=0.065 GT:AD:DP:GQ:PL 0/0:38,5:43:27:0,27,437 0/1:41,10:51:46:46,0,558 0/0:36,2:38:24:0,24,413 0/1:39,6:45:70:70,0,365
451
+ 1 536961 . T C 210.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-6.699;DP=248;Dels=0.00;FS=20.442;HaplotypeScore=1.8162;MLEAC=3;MLEAF=0.375;MQ=22.01;MQ0=46;MQRankSum=-2.724;QD=1.09;ReadPosRankSum=0.383 GT:AD:DP:GQ:PL 0/0:48,6:55:31:0,31,872 0/1:44,15:59:99:115,0,761 0/1:57,11:68:30:30,0,1069 0/1:51,15:66:99:100,0,1082
452
+ 1 536986 . G T 470.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.954;DP=274;Dels=0.00;FS=4.761;HaplotypeScore=3.1573;MLEAC=4;MLEAF=0.500;MQ=22.46;MQ0=36;MQRankSum=-1.678;QD=1.72;ReadPosRankSum=0.014 GT:AD:DP:GQ:PL 0/1:54,12:66:44:44,0,941 0/1:48,17:65:99:214,0,875 0/1:57,12:69:87:87,0,996 0/1:57,17:74:99:158,0,1159
453
+ 1 537053 . G A 175.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=5.178;DP=230;Dels=0.00;FS=5.467;HaplotypeScore=0.3281;MLEAC=4;MLEAF=0.500;MQ=12.92;MQ0=156;MQRankSum=-0.347;QD=0.76;ReadPosRankSum=-0.617 GT:AD:DP:GQ:PL 0/1:51,21:72:38:38,0,257 0/1:44,13:57:28:28,0,347 0/1:34,7:41:35:35,0,242 0/1:45,15:60:99:107,0,309
454
+ 1 537191 . C G 481.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=4.101;DP=157;Dels=0.00;FS=90.477;HaplotypeScore=1.6179;MLEAC=4;MLEAF=0.500;MQ=24.79;MQ0=24;MQRankSum=-3.786;QD=3.07;ReadPosRankSum=-1.068 GT:AD:DP:GQ:PL 0/1:20,13:33:99:185,0,283 0/1:35,14:49:99:189,0,583 0/1:25,16:41:99:107,0,532 0/1:27,7:34:33:33,0,550
455
+ 1 537418 . G A 105.07 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.852;DP=155;Dels=0.00;FS=15.452;HaplotypeScore=0.1446;MLEAC=2;MLEAF=0.250;MQ=16.64;MQ0=84;MQRankSum=-1.450;QD=1.46;ReadPosRankSum=-2.156 GT:AD:DP:GQ:PL 0/0:36,6:42:14:0,14,342 0/1:33,7:40:60:60,0,339 0/1:22,10:32:79:79,0,212 0/0:34,7:41:48:0,48,469
456
+ 1 537468 . G T 103.03 HARD_TO_VALIDATE AC=2;AF=0.250;AN=8;BaseQRankSum=1.935;DP=54;Dels=0.00;FS=0.000;HaplotypeScore=0.1972;MLEAC=2;MLEAF=0.250;MQ=15.17;MQ0=26;MQRankSum=-1.474;QD=3.68;ReadPosRankSum=1.336 GT:AD:DP:GQ:PL 0/0:13,3:16:6:0,6,53 0/1:8,4:12:51:51,0,61 0/0:8,2:10:15:0,15,143 0/1:9,7:16:59:85,0,59
457
+ 1 537487 . C T 127.81 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.571;DP=35;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=14.50;MQ0=15;MQRankSum=-0.175;QD=5.81;ReadPosRankSum=2.706 GT:AD:DP:GQ:PL 0/0:7,1:8:3:0,3,27 0/1:4,6:10:15:84,0,15 0/0:3,2:5:3:0,3,27 1/1:5,7:12:9:77,9,0
458
+ 1 539738 . G C 42.80 LowQual AC=6;AF=1.00;AN=6;DP=5;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=14.99;MQ0=1;QD=8.56 GT:AD:DP:GQ:PL ./. 1/1:0,2:2:3:22,3,0 1/1:0,1:1:3:22,3,0 1/1:0,2:2:3:22,3,0
459
+ 1 541052 . T C 149.28 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.777;DP=186;Dels=0.00;FS=57.816;HaplotypeScore=0.4138;MLEAC=3;MLEAF=0.375;MQ=26.49;MQ0=56;MQRankSum=-3.081;QD=1.05;ReadPosRankSum=0.373 GT:AD:DP:GQ:PL 0/1:33,6:40:12:12,0,594 0/1:39,7:46:45:45,0,688 0/0:38,6:44:18:0,18,680 0/1:44,12:56:99:126,0,870
460
+ 1 544395 . G A 534.96 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.882;DP=186;Dels=0.00;FS=6.547;HaplotypeScore=0.7450;MLEAC=4;MLEAF=0.500;MQ=15.35;MQ0=106;MQRankSum=-0.941;QD=2.88;ReadPosRankSum=-0.160 GT:AD:DP:GQ:PL 0/1:36,7:43:24:24,0,215 0/1:36,18:54:99:291,0,233 0/1:36,8:44:64:64,0,297 0/1:32,12:44:99:188,0,356
461
+ 1 544787 . G C 187.80 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.639;DP=210;Dels=0.00;FS=3.519;HaplotypeScore=1.1522;MLEAC=4;MLEAF=0.500;MQ=23.23;MQ0=74;MQRankSum=-1.598;QD=0.89;ReadPosRankSum=-0.176 GT:AD:DP:GQ:PL 0/1:45,9:54:9:9,0,618 0/1:46,11:57:67:67,0,384 0/1:35,5:40:7:7,0,189 0/1:50,9:59:99:136,0,539
462
+ 1 544814 . C T 73.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=4.018;DP=201;Dels=0.00;FS=0.000;HaplotypeScore=4.3471;MLEAC=2;MLEAF=0.250;MQ=19.01;MQ0=95;MQRankSum=-1.414;QD=0.80;ReadPosRankSum=0.318 GT:AD:DP:GQ:PL 0/1:39,10:52:64:64,0,266 0/0:47,8:56:42:0,42,387 0/1:31,8:40:44:44,0,51 0/0:50,3:53:42:0,42,387
463
+ 1 544815 . G A 32.44 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-1.588;DP=203;Dels=0.00;FS=0.000;HaplotypeScore=4.3471;MLEAC=2;MLEAF=0.250;MQ=18.92;MQ0=97;MQRankSum=-0.227;QD=0.29;ReadPosRankSum=-1.937 GT:AD:DP:GQ:PL 0/0:48,4:52:17:0,17,395 0/1:51,6:57:50:50,0,297 0/0:39,1:40:12:0,12,119 0/1:47,7:54:16:16,0,412
464
+ 1 544940 . T A 92.02 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.350;DP=148;Dels=0.00;FS=0.000;HaplotypeScore=0.4749;MLEAC=4;MLEAF=0.500;MQ=11.36;MQ0=107;MQRankSum=1.417;QD=0.62;ReadPosRankSum=-1.350 GT:AD:DP:GQ:PL 0/1:40,4:46:23:23,0,66 0/1:33,4:39:56:56,0,79 0/1:28,5:33:28:28,0,84 0/1:26,2:29:17:17,0,50
465
+ 1 545952 . T A 84.73 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=-0.698;DP=100;Dels=0.00;FS=0.000;HaplotypeScore=0.1663;MLEAC=1;MLEAF=0.125;MQ=14.52;MQ0=55;MQRankSum=1.193;QD=3.26;ReadPosRankSum=-2.269 GT:AD:DP:GQ:PL 0/1:19,5:26:93:116,0,93 0/0:27,5:32:12:0,12,120 0/0:23,2:25:12:0,12,129 0/0:15,2:17:15:0,15,140
466
+ 1 545995 . C A 132.45 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.454;DP=187;Dels=0.00;FS=0.000;HaplotypeScore=1.7093;MLEAC=3;MLEAF=0.375;MQ=15.69;MQ0=93;MQRankSum=-0.619;QD=1.07;ReadPosRankSum=1.400 GT:AD:DP:GQ:PL 0/1:40,10:50:94:94,0,247 0/0:53,9:62:6:0,6,252 0/1:31,4:35:17:17,0,213 0/1:34,5:39:54:54,0,322
467
+ 1 546004 . A G 64.94 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.807;DP=205;Dels=0.00;FS=19.104;HaplotypeScore=3.1930;MLEAC=2;MLEAF=0.250;MQ=16.07;MQ0=100;MQRankSum=-0.334;QD=0.60;ReadPosRankSum=-1.979 GT:AD:DP:GQ:PL 0/0:48,5:54:21:0,21,417 0/1:60,8:68:37:37,0,309 0/1:34,7:41:62:62,0,314 0/0:35,7:42:57:0,57,535
468
+ 1 546197 . G A 36.03 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=0.890;DP=145;Dels=0.00;FS=0.000;HaplotypeScore=1.5915;MLEAC=2;MLEAF=0.250;MQ=17.11;MQ0=72;MQRankSum=0.084;QD=0.46;ReadPosRankSum=0.197 GT:AD:DP:GQ:PL 0/1:39,5:44:18:18,0,301 0/1:28,7:35:52:52,0,207 0/0:24,6:30:33:0,33,314 0/0:33,3:36:45:0,45,443
469
+ 1 546528 . C T 41.35 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-2.066;DP=175;Dels=0.00;FS=3.524;HaplotypeScore=1.7760;MLEAC=1;MLEAF=0.125;MQ=28.51;MQ0=59;MQRankSum=-3.117;QD=0.96;ReadPosRankSum=-1.117 GT:AD:DP:GQ:PL 0/0:39,4:43:60:0,60,623 0/1:32,11:43:73:73,0,560 0/0:32,3:35:40:0,40,672 0/0:45,8:54:23:0,23,1060
470
+ 1 546697 . A G 6203.35 PASS AC=8;AF=1.00;AN=8;DP=259;Dels=0.00;FS=0.000;HaplotypeScore=2.5417;MLEAC=8;MLEAF=1.00;MQ=33.29;MQ0=8;QD=23.95 GT:AD:DP:GQ:PL 1/1:0,66:66:99:1525,150,0 1/1:0,86:86:99:1804,177,0 1/1:0,56:56:99:1466,144,0 1/1:0,51:51:99:1434,141,0
471
+ 1 546732 . C T 163.33 PASS AC=1;AF=0.125;AN=8;BaseQRankSum=-1.589;DP=334;Dels=0.00;FS=76.784;HaplotypeScore=5.5379;MLEAC=1;MLEAF=0.125;MQ=32.34;MQ0=25;MQRankSum=-4.433;QD=1.97;ReadPosRankSum=-4.155 GT:AD:DP:GQ:PL 0/1:63,20:83:99:195,0,1171 0/0:83,7:90:84:0,84,1701 0/0:73,12:85:37:0,37,1773 0/0:64,12:76:44:0,44,1697
472
+ 1 546802 . G C 682.03 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-5.007;DP=410;Dels=0.00;FS=137.762;HaplotypeScore=9.7613;MLEAC=4;MLEAF=0.500;MQ=26.81;MQ0=75;MQRankSum=-3.614;QD=1.66;ReadPosRankSum=1.698 GT:AD:DP:GQ:PL 0/1:67,39:106:99:412,0,874 0/1:71,33:104:79:79,0,918 0/1:65,36:102:15:15,0,915 0/1:66,32:98:99:208,0,1031
473
+ 1 546805 . T C 766.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.452;DP=403;Dels=0.00;FS=151.729;HaplotypeScore=10.4984;MLEAC=4;MLEAF=0.500;MQ=26.59;MQ0=72;MQRankSum=-3.344;QD=1.90;ReadPosRankSum=2.671 GT:AD:DP:GQ:PL 0/1:61,40:105:99:379,0,845 0/1:66,32:101:56:56,0,860 0/1:58,38:98:99:107,0,769 0/1:61,36:98:99:257,0,945
474
+ 1 546882 . T C 534.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.889;DP=460;Dels=0.00;FS=62.716;HaplotypeScore=7.4162;MLEAC=4;MLEAF=0.500;MQ=22.44;MQ0=146;MQRankSum=-5.555;QD=1.16;ReadPosRankSum=-3.560 GT:AD:DP:GQ:PL 0/1:65,45:115:99:125,0,1054 0/1:64,46:112:99:205,0,766 0/1:65,53:121:99:115,0,813 0/1:67,41:109:99:122,0,848
475
+ 1 546925 . G A 278.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=7.901;DP=902;Dels=0.00;FS=0.878;HaplotypeScore=7.7591;MLEAC=3;MLEAF=0.375;MQ=20.75;MQ0=308;MQRankSum=-3.067;QD=0.43;ReadPosRankSum=-4.313 GT:AD:DP:GQ:PL 0/0:205,44:249:91:0,91,2198 0/1:207,33:240:26:26,0,1748 0/1:164,35:200:66:66,0,1529 0/1:170,41:213:99:221,0,1446
476
+ 1 546952 . T C 2601.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-7.746;DP=939;Dels=0.00;FS=0.982;HaplotypeScore=3.9579;MLEAC=4;MLEAF=0.500;MQ=19.17;MQ0=358;MQRankSum=-2.458;QD=2.77;ReadPosRankSum=6.629 GT:AD:DP:GQ:PL 0/1:132,111:247:99:585,0,1162 0/1:129,120:250:99:728,0,1004 0/1:100,116:217:99:551,0,1063 0/1:105,119:225:99:770,0,880
477
+ 1 546965 . G A 486.96 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.615;DP=937;Dels=0.00;FS=1.852;HaplotypeScore=13.1604;MLEAC=4;MLEAF=0.500;MQ=17.93;MQ0=384;MQRankSum=0.434;QD=0.52;ReadPosRankSum=0.550 GT:AD:DP:GQ:PL 0/1:214,34:250:99:227,0,1089 0/1:204,45:249:23:23,0,1376 0/1:170,34:204:99:120,0,1284 0/1:199,34:234:99:149,0,1177
478
+ 1 546985 . G A 161.10 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=3.188;DP=902;Dels=0.00;FS=67.170;HaplotypeScore=10.4785;MLEAC=2;MLEAF=0.250;MQ=15.92;MQ0=421;MQRankSum=2.110;QD=0.37;ReadPosRankSum=2.434 GT:AD:DP:GQ:PL 0/1:223,25:250:99:162,0,1034 0/0:219,23:242:5:0,5,1304 0/1:171,18:189:32:32,0,1038 0/0:201,19:221:50:0,50,1141
479
+ 1 547110 . C T 172.42 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.284;DP=754;Dels=0.00;FS=0.000;HaplotypeScore=14.7675;MLEAC=3;MLEAF=0.375;MQ=9.96;MQ0=526;MQRankSum=2.988;QD=0.30;ReadPosRankSum=1.498 GT:AD:DP:GQ:PL 0/1:178,14:195:9:9,0,334 0/1:176,22:200:99:139,0,113 0/0:160,11:176:30:0,30,261 0/1:166,12:180:58:58,0,128
480
+ 1 547112 . G C 101.68 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-6.181;DP=742;Dels=0.01;FS=0.000;HaplotypeScore=14.4216;MLEAC=3;MLEAF=0.375;MQ=10.08;MQ0=511;MQRankSum=2.432;QD=0.18;ReadPosRankSum=1.373 GT:AD:DP:GQ:PL 0/1:179,17:196:4:4,0,366 0/1:171,22:195:99:118,0,154 0/0:150,14:165:30:0,30,279 0/1:167,13:180:12:12,0,300
481
+ 1 547133 . G A 36.14 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=1.816;DP=858;Dels=0.00;FS=0.000;HaplotypeScore=4.5250;MLEAC=2;MLEAF=0.250;MQ=12.42;MQ0=516;MQRankSum=-0.673;QD=0.09;ReadPosRankSum=3.848 GT:AD:DP:GQ:PL 0/0:224,19:246:74:0,74,996 0/0:207,10:218:93:0,93,916 0/1:165,23:188:55:55,0,484 0/1:181,25:206:15:15,0,632
482
+ 1 547146 . C T 149.14 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=3.536;DP=889;Dels=0.00;FS=3.731;HaplotypeScore=7.5274;MLEAC=3;MLEAF=0.375;MQ=13.80;MQ0=491;MQRankSum=-0.557;QD=0.23;ReadPosRankSum=-1.879 GT:AD:DP:GQ:PL 0/0:204,43:248:22:0,22,691 0/1:195,28:224:5:5,0,781 0/1:161,44:208:31:31,0,570 0/1:151,56:207:99:146,0,598
483
+ 1 547160 . T C 67.21 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-9.876;DP=907;Dels=0.00;FS=6.374;HaplotypeScore=8.3699;MLEAC=3;MLEAF=0.375;MQ=14.87;MQ0=452;MQRankSum=1.846;QD=0.10;ReadPosRankSum=1.080 GT:AD:DP:GQ:PL 0/1:214,35:249:78:78,0,1059 0/1:219,19:240:5:5,0,1015 0/0:187,24:212:26:0,26,1014 0/1:172,32:205:17:17,0,968
484
+ 1 547185 . G T 314.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-2.557;DP=908;Dels=0.00;FS=11.036;HaplotypeScore=3.3190;MLEAC=4;MLEAF=0.500;MQ=14.34;MQ0=472;MQRankSum=-0.287;QD=0.35;ReadPosRankSum=-1.141 GT:AD:DP:GQ:PL 0/1:214,35:249:99:99,0,843 0/1:195,40:238:77:77,0,1023 0/1:169,30:199:53:53,0,1072 0/1:184,37:221:99:118,0,895
485
+ 1 547214 . C T 135.42 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=5.777;DP=844;Dels=0.00;FS=8.982;HaplotypeScore=9.7856;MLEAC=3;MLEAF=0.375;MQ=12.42;MQ0=523;MQRankSum=2.303;QD=0.22;ReadPosRankSum=1.331 GT:AD:DP:GQ:PL 0/1:225,18:244:42:42,0,555 0/0:206,11:219:11:0,11,689 0/1:163,15:178:83:83,0,601 0/1:188,13:202:44:44,0,472
486
+ 1 547237 . G A 446.96 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.491;DP=781;Dels=0.00;FS=25.348;HaplotypeScore=1.9678;MLEAC=4;MLEAF=0.500;MQ=9.65;MQ0=581;MQRankSum=-0.424;QD=0.57;ReadPosRankSum=0.082 GT:AD:DP:GQ:PL 0/1:203,44:247:99:148,0,344 0/1:159,34:193:24:24,0,332 0/1:120,41:161:99:213,0,299 0/1:133,47:180:94:94,0,337
487
+ 1 547250 . C T 223.36 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.142;DP=723;Dels=0.00;FS=10.636;HaplotypeScore=0.1663;MLEAC=3;MLEAF=0.375;MQ=6.53;MQ0=590;MQRankSum=-0.896;QD=0.41;ReadPosRankSum=1.459 GT:AD:DP:GQ:PL 0/1:187,36:226:99:108,0,153 0/1:153,30:184:4:4,0,149 0/1:109,29:140:99:144,0,137 0/0:140,32:173:33:0,33,303
488
+ 1 547484 . C T 34.24 HARD_TO_VALIDATE;LowQD;LowQual AC=5;AF=0.625;AN=8;BaseQRankSum=5.111;DP=808;Dels=0.00;FS=0.000;HaplotypeScore=2.3192;MLEAC=5;MLEAF=0.625;MQ=4.13;MQ0=613;MQRankSum=2.773;QD=0.06;ReadPosRankSum=-4.773 GT:AD:DP:GQ:PL 1/1:205,34:241:3:25,3,0 0/1:184,22:209:17:17,0,27 1/1:131,23:154:3:23,3,0 0/0:178,23:203:3:0,3,24
489
+ 1 547562 . C T 46.66 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.750;AN=4;BaseQRankSum=0.733;DP=161;Dels=0.00;FS=0.000;HaplotypeScore=8.1579;MLEAC=3;MLEAF=0.750;MQ=7.01;MQ0=123;MQRankSum=1.890;QD=0.45;ReadPosRankSum=1.273 GT:AD:DP:GQ:PL 1/1:32,17:51:6:59,6,0 ./. ./. 0/1:48,4:52:15:15,0,58
490
+ 1 547564 . A C 46.66 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.750;AN=4;BaseQRankSum=0.634;DP=150;Dels=0.00;FS=0.000;HaplotypeScore=8.6050;MLEAC=3;MLEAF=0.750;MQ=7.26;MQ0=114;MQRankSum=2.124;QD=0.49;ReadPosRankSum=0.783 GT:AD:DP:GQ:PL 1/1:37,7:45:6:59,6,0 ./. ./. 0/1:49,2:51:15:15,0,58
491
+ 1 547601 . G T 36.89 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=-0.975;DP=382;Dels=0.00;FS=9.457;HaplotypeScore=2.8949;MLEAC=3;MLEAF=0.375;MQ=9.82;MQ0=269;MQRankSum=0.598;QD=0.12;ReadPosRankSum=0.526 GT:AD:DP:GQ:PL 0/1:82,18:100:12:12,0,255 0/1:70,28:98:13:13,0,269 0/0:64,14:78:11:0,11,261 0/1:86,19:105:45:45,0,326
492
+ 1 547782 . C T 98.95 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=4.701;DP=629;Dels=0.00;FS=20.213;HaplotypeScore=12.7331;MLEAC=3;MLEAF=0.375;MQ=8.87;MQ0=331;MQRankSum=3.986;QD=0.23;ReadPosRankSum=-2.929 GT:AD:DP:GQ:PL 0/0:187,4:192:14:0,14,322 0/1:162,11:174:92:92,0,272 0/1:111,6:119:33:33,0,108 0/1:138,6:144:7:7,0,320
493
+ 1 554354 . G A 32.71 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=3.014;DP=174;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=6.98;MQ0=153;MQRankSum=0.289;QD=0.25;ReadPosRankSum=0.950 GT:AD:DP:GQ:PL 0/0:43,2:45:3:0,3,25 0/1:45,7:52:18:18,0,44 0/1:35,3:38:13:13,0,97 0/1:36,3:39:33:33,0,106
494
+ 1 554662 . A C 98.91 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.905;DP=198;Dels=0.00;FS=24.626;HaplotypeScore=1.1957;MLEAC=2;MLEAF=0.250;MQ=15.71;MQ0=121;MQRankSum=-3.307;QD=1.05;ReadPosRankSum=-0.103 GT:AD:DP:GQ:PL 0/0:41,7:48:27:0,27,470 0/1:41,11:52:65:65,0,214 0/1:30,12:42:68:68,0,234 0/0:46,8:54:36:0,36,524
495
+ 1 554735 . G A 176.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=4.404;DP=167;Dels=0.00;FS=32.803;HaplotypeScore=1.4230;MLEAC=3;MLEAF=0.375;MQ=18.39;MQ0=74;MQRankSum=-2.121;QD=1.40;ReadPosRankSum=-0.507 GT:AD:DP:GQ:PL 0/0:35,6:41:39:0,39,534 0/1:34,11:45:38:38,0,265 0/1:28,13:41:97:97,0,353 0/1:30,10:40:76:76,0,509
496
+ 1 554797 . C T 192.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.519;DP=222;Dels=0.00;FS=0.000;HaplotypeScore=1.9418;MLEAC=3;MLEAF=0.375;MQ=31.24;MQ0=47;MQRankSum=-7.742;QD=1.16;ReadPosRankSum=0.393 GT:AD:DP:GQ:PL 0/1:34,16:50:30:30,0,743 0/0:40,15:55:48:0,48,1149 0/1:34,19:53:50:50,0,832 0/1:37,26:63:99:147,0,1007
497
+ 1 555165 . T G 557.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.047;DP=239;Dels=0.00;FS=0.000;HaplotypeScore=0.4811;MLEAC=4;MLEAF=0.500;MQ=18.07;MQ0=105;MQRankSum=-1.531;QD=2.33;ReadPosRankSum=-1.851 GT:AD:DP:GQ:PL 0/1:29,15:44:89:89,0,279 0/1:46,25:71:99:280,0,554 0/1:43,17:60:46:46,0,398 0/1:47,17:64:99:175,0,527
498
+ 1 555561 . C T 73.97 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=3.388;DP=279;Dels=0.00;FS=0.000;HaplotypeScore=0.2479;MLEAC=3;MLEAF=0.375;MQ=12.45;MQ0=179;MQRankSum=0.444;QD=0.35;ReadPosRankSum=0.097 GT:AD:DP:GQ:PL 0/0:63,6:69:22:0,22,368 0/1:64,10:74:52:52,0,468 0/1:51,6:57:24:24,0,525 0/1:68,11:79:32:32,0,439
499
+ 1 557155 . C T 283.98 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-2.530;DP=233;Dels=0.00;FS=14.674;HaplotypeScore=1.3223;MLEAC=4;MLEAF=0.500;MQ=14.81;MQ0=126;MQRankSum=1.637;QD=1.22;ReadPosRankSum=1.392 GT:AD:DP:GQ:PL 0/1:55,9:64:61:61,0,508 0/1:52,10:62:20:20,0,427 0/1:35,15:50:99:210,0,292 0/1:47,10:57:25:25,0,409
500
+ 1 559135 . T G 211.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-6.557;DP=160;Dels=0.00;FS=7.335;HaplotypeScore=1.2295;MLEAC=4;MLEAF=0.500;MQ=18.28;MQ0=79;MQRankSum=0.124;QD=1.32;ReadPosRankSum=1.798 GT:AD:DP:GQ:PL 0/1:40,5:46:28:28,0,389 0/1:34,7:41:45:45,0,376 0/1:20,7:27:99:117,0,232 0/1:39,7:46:54:54,0,362
501
+ 1 559368 . A G 723.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.547;DP=218;Dels=0.00;FS=4.073;HaplotypeScore=3.0723;MLEAC=4;MLEAF=0.500;MQ=23.27;MQ0=40;MQRankSum=-3.604;QD=3.32;ReadPosRankSum=-0.052 GT:AD:DP:GQ:PL 0/1:36,17:53:99:276,0,569 0/1:44,9:53:94:94,0,993 0/1:42,13:55:99:216,0,690 0/1:44,12:56:99:170,0,720
502
+ 1 559631 . A G 126.92 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.003;DP=169;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=16.76;MQ0=84;MQRankSum=-2.399;QD=1.09;ReadPosRankSum=0.693 GT:AD:DP:GQ:PL 0/1:33,7:40:99:100,0,329 0/1:32,6:38:30:30,0,346 0/1:35,3:38:31:31,0,359 0/0:49,4:53:28:0,28,680
503
+ 1 559889 . A G 57.06 HARD_TO_VALIDATE AC=2;AF=0.250;AN=8;BaseQRankSum=-0.384;DP=57;Dels=0.00;FS=0.000;HaplotypeScore=2.5685;MLEAC=2;MLEAF=0.250;MQ=33.52;MQ0=17;MQRankSum=-2.177;QD=1.63;ReadPosRankSum=2.214 GT:AD:DP:GQ:PL 0/1:14,5:19:26:26,0,299 0/1:11,5:16:65:65,0,144 0/0:9,0:9:18:0,18,195 0/0:10,3:13:18:0,18,173
504
+ 1 562020 . T C 473.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.620;DP=94;Dels=0.00;FS=17.996;HaplotypeScore=6.3382;MLEAC=4;MLEAF=0.500;MQ=31.46;MQ0=29;MQRankSum=1.532;QD=5.04;ReadPosRankSum=0.667 GT:AD:DP:GQ:PL 0/1:10,5:15:74:74,0,168 0/1:22,9:32:99:216,0,168 0/1:13,5:18:73:73,0,114 0/1:18,10:28:99:143,0,214
505
+ 1 562908 . A G 54.80 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=15;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=9.98;MQ0=10;QD=4.98 GT:AD:DP:GQ:PL ./. 1/1:0,4:4:3:22,3,0 1/1:1,2:3:3:28,3,0 1/1:0,4:4:3:28,3,0
506
+ 1 563599 . C T 123.80 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=3.016;DP=57;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=11.93;MQ0=44;MQRankSum=1.493;QD=3.26;ReadPosRankSum=-0.935 GT:AD:DP:GQ:PL 0/1:11,5:16:16:81,0,16 0/0:17,2:19:15:0,15,130 0/1:8,5:13:20:48,0,20 1/1:8,1:9:3:29,3,0
507
+ 1 563625 . T C 502.53 PASS AC=8;AF=1.00;AN=8;DP=22;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=22.12;MQ0=1;QD=22.84 GT:AD:DP:GQ:PL 1/1:0,7:7:15:141,15,0 1/1:0,5:5:15:134,15,0 1/1:0,4:4:12:114,12,0 1/1:0,6:6:15:139,15,0
508
+ 1 567242 . G A 123.34 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=-0.458;DP=396;Dels=0.00;FS=4.405;HaplotypeScore=28.8368;MLEAC=1;MLEAF=0.125;MQ=20.28;MQ0=265;MQRankSum=-1.212;QD=3.25;ReadPosRankSum=-3.853 GT:AD:DP:GQ:PL 0/1:31,7:38:99:155,0,254 0/0:128,1:129:60:0,60,671 0/0:96,1:97:90:0,90,1019 0/0:126,6:132:27:0,27,978
509
+ 1 571623 . T G 1194.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.563;DP=200;Dels=0.00;FS=0.000;HaplotypeScore=2.3366;MLEAC=4;MLEAF=0.500;MQ=26.44;MQ0=105;MQRankSum=-0.168;QD=5.97;ReadPosRankSum=0.332 GT:AD:DP:GQ:PL 0/1:20,29:49:99:385,0,207 0/1:30,29:59:99:189,0,459 0/1:21,22:43:99:217,0,291 0/1:21,28:49:99:436,0,227
510
+ 1 571629 . T C 1474.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.405;DP=190;Dels=0.00;FS=0.000;HaplotypeScore=2.3788;MLEAC=4;MLEAF=0.500;MQ=25.58;MQ0=105;MQRankSum=1.089;QD=7.76;ReadPosRankSum=0.496 GT:AD:DP:GQ:PL 0/1:13,32:45:86:441,0,86 0/1:23,33:56:99:310,0,293 0/1:13,26:39:99:269,0,207 0/1:15,35:50:99:487,0,180
511
+ 1 571646 . G A 321.93 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-3.645;DP=187;Dels=0.00;FS=0.000;HaplotypeScore=1.2309;MLEAC=4;MLEAF=0.500;MQ=24.54;MQ0=109;MQRankSum=-0.074;QD=2.21;ReadPosRankSum=1.264 GT:AD:DP:GQ:PL 0/1:35,11:46:99:116,0,433 0/1:38,13:51:72:72,0,466 0/0:34,7:41:2:0,2,397 0/1:33,16:49:99:165,0,452
512
+ 1 571672 . T C 100.27 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.663;DP=180;Dels=0.00;FS=0.000;HaplotypeScore=0.2497;MLEAC=4;MLEAF=0.500;MQ=18.85;MQ0=131;MQRankSum=0.825;QD=0.56;ReadPosRankSum=1.068 GT:AD:DP:GQ:PL 0/1:36,5:41:35:35,0,275 0/1:41,4:46:9:9,0,202 0/1:36,9:45:44:44,0,219 0/1:38,10:48:44:44,0,377
513
+ 1 577193 . G A 37.19 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=3.062;DP=149;Dels=0.00;FS=2.448;HaplotypeScore=0.9072;MLEAC=1;MLEAF=0.125;MQ=9.83;MQ0=111;MQRankSum=-1.902;QD=0.85;ReadPosRankSum=-2.222 GT:AD:DP:GQ:PL 0/0:33,3:36:5:0,5,203 0/0:31,2:33:15:0,15,126 0/0:35,1:36:18:0,18,152 0/1:39,5:44:68:68,0,123
514
+ 1 588788 . C T 366.04 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-1.189;DP=170;Dels=0.00;FS=0.000;HaplotypeScore=1.3744;MLEAC=3;MLEAF=0.375;MQ=21.65;MQ0=49;MQRankSum=-3.022;QD=2.69;ReadPosRankSum=0.190 GT:AD:DP:GQ:PL 0/0:29,5:34:4:0,4,463 0/1:32,9:41:99:122,0,607 0/1:34,8:42:76:76,0,484 0/1:40,12:52:99:200,0,537
515
+ 1 591818 . G A 187.47 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=4.866;DP=107;Dels=0.00;FS=0.000;HaplotypeScore=0.2487;MLEAC=4;MLEAF=0.500;MQ=20.43;MQ0=61;MQRankSum=-0.013;QD=2.31;ReadPosRankSum=-0.213 GT:AD:DP:GQ:PL 0/1:18,8:26:68:68,0,106 0/0:20,6:26:1:0,1,210 0/1:22,7:29:99:111,0,230 0/1:22,4:26:39:39,0,131
516
+ 1 594361 . A C 143.91 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.988;DP=158;Dels=0.00;FS=0.000;HaplotypeScore=0.7444;MLEAC=4;MLEAF=0.500;MQ=11.89;MQ0=110;MQRankSum=1.107;QD=0.91;ReadPosRankSum=-0.679 GT:AD:DP:GQ:PL 0/1:32,6:38:32:32,0,288 0/1:43,4:47:4:4,0,129 0/1:26,7:33:30:30,0,120 0/1:32,8:40:96:109,0,96
517
+ 1 598588 . T C 212.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.549;DP=124;Dels=0.00;FS=0.000;HaplotypeScore=1.0548;MLEAC=4;MLEAF=0.500;MQ=12.84;MQ0=71;MQRankSum=-1.925;QD=1.72;ReadPosRankSum=-0.272 GT:AD:DP:GQ:PL 0/1:23,5:28:63:63,0,162 0/1:25,8:33:84:84,0,159 0/1:25,5:30:66:66,0,140 0/1:27,6:33:32:32,0,230
518
+ 1 598770 . T C 273.96 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-3.943;DP=127;Dels=0.00;FS=0.000;HaplotypeScore=0.2467;MLEAC=4;MLEAF=0.500;MQ=13.24;MQ0=71;MQRankSum=-0.592;QD=2.16;ReadPosRankSum=0.288 GT:AD:DP:GQ:PL 0/1:21,7:28:99:121,0,112 0/1:26,4:30:32:32,0,238 0/1:20,10:30:99:131,0,131 0/1:30,9:39:22:22,0,146
519
+ 1 601841 . G C 190.94 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=3.213;DP=183;Dels=0.00;FS=72.478;HaplotypeScore=0.9450;MLEAC=3;MLEAF=0.375;MQ=24.65;MQ0=89;MQRankSum=-0.770;QD=1.27;ReadPosRankSum=-1.492 GT:AD:DP:GQ:PL 0/1:45,8:53:99:112,0,506 0/0:31,2:33:24:0,24,530 0/1:43,8:51:83:83,0,459 0/1:41,5:46:30:30,0,597
520
+ 1 603023 . C A 91.91 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=1.216;DP=110;Dels=0.00;FS=10.183;HaplotypeScore=1.5623;MLEAC=1;MLEAF=0.125;MQ=18.69;MQ0=47;MQRankSum=-0.037;QD=2.63;ReadPosRankSum=-0.755 GT:AD:DP:GQ:PL 0/0:21,1:22:1:0,1,198 0/0:27,2:30:1:0,1,371 0/0:21,2:23:24:0,24,221 0/1:28,7:35:99:120,0,324
521
+ 1 622162 . A G 45.54 HARD_TO_VALIDATE;LowQD;LowQual AC=4;AF=0.500;AN=8;BaseQRankSum=-2.938;DP=112;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=3;MLEAF=0.375;MQ=8.05;MQ0=97;MQRankSum=1.501;QD=0.51;ReadPosRankSum=-0.588 GT:AD:DP:GQ:PL 1/1:21,1:22:3:28,3,0 0/1:28,3:31:36:36,0,93 0/0:22,1:23:9:0,9,77 0/1:34,2:36:15:15,0,72
522
+ 1 622348 . T C 72.52 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.405;DP=109;Dels=0.00;FS=0.000;HaplotypeScore=0.2080;MLEAC=4;MLEAF=0.500;MQ=10.29;MQ0=87;MQRankSum=0.037;QD=0.67;ReadPosRankSum=0.479 GT:AD:DP:GQ:PL 0/1:25,4:29:14:14,0,97 0/1:26,3:29:64:65,0,64 0/1:23,2:25:8:8,0,117 0/1:22,3:26:17:17,0,71
523
+ 1 622663 . T C 41.94 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=1.691;DP=219;Dels=0.00;FS=82.572;HaplotypeScore=1.2356;MLEAC=2;MLEAF=0.250;MQ=17.07;MQ0=90;MQRankSum=2.720;QD=0.41;ReadPosRankSum=-0.847 GT:AD:DP:GQ:PL 0/1:42,9:51:23:23,0,578 0/1:44,7:51:53:53,0,592 0/0:55,5:60:49:0,49,827 0/0:54,3:57:61:0,61,759
524
+ 1 626579 . G A 52.33 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=-3.665;DP=160;Dels=0.00;FS=28.682;HaplotypeScore=1.6665;MLEAC=1;MLEAF=0.125;MQ=40.42;MQ0=22;MQRankSum=-6.318;QD=1.80;ReadPosRankSum=-1.521 GT:AD:DP:GQ:PL 0/1:20,9:29:84:84,0,551 0/0:46,11:57:99:0,106,1419 0/0:23,10:33:42:0,42,686 0/0:29,11:40:37:0,37,828
525
+ 1 628140 . T C 138.03 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-6.061;DP=184;Dels=0.00;FS=0.000;HaplotypeScore=0.9930;MLEAC=4;MLEAF=0.500;MQ=15.87;MQ0=84;MQRankSum=0.247;QD=0.75;ReadPosRankSum=-0.812 GT:AD:DP:GQ:PL 0/1:36,6:42:40:40,0,412 0/1:40,8:48:87:87,0,358 0/1:42,6:48:15:15,0,440 0/1:38,8:46:28:28,0,507
526
+ 1 632630 . A G 102.49 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.395;DP=145;Dels=0.00;FS=40.584;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=8.62;MQ0=128;MQRankSum=-3.512;QD=1.09;ReadPosRankSum=-0.818 GT:AD:DP:GQ:PL 0/0:49,2:51:3:0,3,27 0/1:31,4:35:48:48,0,160 1/1:17,2:19:3:25,3,0 0/1:36,4:40:39:61,0,39
527
+ 1 632709 . C T 512.41 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=2.069;DP=109;Dels=0.00;FS=11.139;HaplotypeScore=0.7400;MLEAC=7;MLEAF=0.875;MQ=9.68;MQ0=83;MQRankSum=-0.241;QD=4.70;ReadPosRankSum=0.914 GT:AD:DP:GQ:PL 1/1:19,5:24:12:102,12,0 0/1:19,5:24:13:86,0,13 1/1:23,6:29:12:102,12,0 1/1:22,10:32:30:253,30,0
528
+ 1 633277 . C T 220.06 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=1.423;DP=89;Dels=0.00;FS=10.414;HaplotypeScore=0.2467;MLEAC=7;MLEAF=0.875;MQ=7.93;MQ0=78;MQRankSum=1.107;QD=2.47;ReadPosRankSum=-1.107 GT:AD:DP:GQ:PL 1/1:23,4:27:3:25,3,0 0/1:14,2:16:19:19,0,19 1/1:14,3:17:9:83,9,0 1/1:18,11:29:15:123,15,0
529
+ 1 636318 . G A 36.33 LowQual AC=2;AF=1.00;AN=2;DP=2;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=2;MLEAF=1.00;MQ=32.28;MQ0=0;QD=18.16 GT:AD:DP:GQ:PL ./. ./. 1/1:0,2:2:6:61,6,0 ./.
530
+ 1 645780 . A G 63.34 HARD_TO_VALIDATE;LowQD AC=3;AF=0.500;AN=6;BaseQRankSum=0.890;DP=72;Dels=0.00;FS=0.000;HaplotypeScore=0.3245;MLEAC=3;MLEAF=0.500;MQ=8.91;MQ0=54;MQRankSum=0.421;QD=1.09;ReadPosRankSum=1.171 GT:AD:DP:GQ:PL 0/1:11,4:15:49:73,0,49 0/1:21,2:23:5:5,0,99 ./. 0/1:19,1:20:14:14,0,36
531
+ 1 650097 . A G 196.42 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=131;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=4.81;MQ0=121;QD=1.50 GT:AD:DP:GQ:PL 1/1:26,4:30:3:22,3,0 1/1:27,11:38:12:89,12,0 1/1:16,8:24:9:65,9,0 1/1:28,11:39:6:45,6,0
532
+ 1 650823 . A G 77.06 HARD_TO_VALIDATE;LowQD AC=4;AF=0.667;AN=6;BaseQRankSum=0.358;DP=159;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.667;MQ=6.35;MQ0=154;MQRankSum=1.231;QD=0.93;ReadPosRankSum=-0.358 GT:AD:DP:GQ:PL ./. 1/1:38,4:42:6:70,6,0 1/1:36,5:41:3:36,3,0 0/0:33,5:38:3:0,3,35
533
+ 1 651054 . A G 192.12 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=1.291;DP=122;Dels=0.00;FS=0.000;HaplotypeScore=0.2487;MLEAC=3;MLEAF=0.375;MQ=16.31;MQ0=99;MQRankSum=-0.787;QD=2.11;ReadPosRankSum=0.409 GT:AD:DP:GQ:PL 0/1:25,4:29:51:51,0,120 0/1:28,9:37:43:117,0,43 0/1:20,5:25:58:58,0,91 0/0:30,1:31:15:0,15,159
534
+ 1 651077 . T C 210.77 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=1.109;DP=113;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=5;MLEAF=0.625;MQ=12.64;MQ0=99;MQRankSum=0.965;QD=1.87;ReadPosRankSum=0.471 GT:AD:DP:GQ:PL 0/1:20,6:27:23:93,0,23 0/1:33,2:35:19:19,0,89 0/1:24,3:27:23:28,0,23 1/1:21,3:24:9:104,9,0
535
+ 1 651149 . C T 448.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.924;DP=144;Dels=0.00;FS=0.000;HaplotypeScore=0.5834;MLEAC=4;MLEAF=0.500;MQ=23.80;MQ0=97;MQRankSum=-2.562;QD=3.12;ReadPosRankSum=1.045 GT:AD:DP:GQ:PL 0/1:23,5:29:99:115,0,118 0/1:38,6:44:99:126,0,137 0/1:30,7:37:99:140,0,138 0/1:27,7:34:99:100,0,176
536
+ 1 657788 . G C 1329.64 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.842;DP=117;Dels=0.00;FS=9.226;HaplotypeScore=0.9385;MLEAC=8;MLEAF=1.00;MQ=16.48;MQ0=53;MQRankSum=2.128;QD=11.36;ReadPosRankSum=-1.969 GT:AD:DP:GQ:PL 1/1:14,25:39:60:536,60,0 1/1:9,12:21:6:219,6,0 1/1:9,18:27:18:338,18,0 1/1:13,17:30:30:262,30,0
537
+ 1 660078 . G A 146.77 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=183;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=4.07;MQ0=173;QD=1.65 GT:AD:DP:GQ:PL 1/1:27,10:37:9:74,9,0 ./. ./. 1/1:40,12:52:12:98,12,0
538
+ 1 662029 . G A 141.07 HARD_TO_VALIDATE;LowQD AC=5;AF=0.833;AN=6;BaseQRankSum=0.747;DP=151;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=5;MLEAF=0.833;MQ=4.83;MQ0=143;MQRankSum=0.747;QD=1.23;ReadPosRankSum=-0.747 GT:AD:DP:GQ:PL 1/1:24,6:30:9:77,9,0 0/1:38,3:41:17:42,0,17 ./. 1/1:32,12:44:6:51,6,0
539
+ 1 662201 . G A 744.51 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.628;DP=137;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=10.30;MQ0=104;MQRankSum=1.418;QD=5.43;ReadPosRankSum=-0.473 GT:AD:DP:GQ:PL 1/1:15,12:28:9:79,9,0 1/1:26,16:43:36:315,36,0 1/1:21,11:32:24:218,24,0 1/1:19,14:33:18:158,18,0
540
+ 1 662857 . G A 1573.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.777;DP=101;Dels=0.00;FS=0.000;HaplotypeScore=0.7446;MLEAC=8;MLEAF=1.00;MQ=24.47;MQ0=34;MQRankSum=1.291;QD=15.58;ReadPosRankSum=-0.094 GT:AD:DP:GQ:PL 1/1:9,18:27:42:426,42,0 1/1:8,16:24:30:335,30,0 1/1:10,14:24:27:282,27,0 1/1:7,19:26:51:556,51,0
541
+ 1 663097 . G C 1959.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=108;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=19.44;MQ0=29;QD=18.14 GT:AD:DP:GQ:PL 1/1:8,17:25:42:375,42,0 1/1:0,18:18:51:473,51,0 1/1:12,19:31:45:404,45,0 1/1:3,31:34:81:733,81,0
542
+ 1 663150 . C T 551.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.050;DP=89;Dels=0.00;FS=4.876;HaplotypeScore=2.3304;MLEAC=4;MLEAF=0.500;MQ=19.92;MQ0=19;MQRankSum=-0.715;QD=6.20;ReadPosRankSum=1.629 GT:AD:DP:GQ:PL 0/1:15,9:24:99:142,0,191 0/1:7,11:18:99:101,0,108 0/1:14,10:24:96:180,0,96 0/1:12,11:23:99:161,0,126
543
+ 1 663412 . G A 395.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.356;DP=97;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=14.48;MQ0=56;MQRankSum=-0.894;QD=4.08;ReadPosRankSum=-0.785 GT:AD:DP:GQ:PL 0/1:9,5:15:38:67,0,38 0/1:17,10:27:78:150,0,78 0/1:22,6:28:79:111,0,79 0/1:20,6:27:99:100,0,179
544
+ 1 664271 . C A 332.30 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=0.971;DP=105;Dels=0.00;FS=0.000;HaplotypeScore=0.1446;MLEAC=7;MLEAF=0.875;MQ=8.76;MQ0=83;MQRankSum=-1.656;QD=3.16;ReadPosRankSum=1.656 GT:AD:DP:GQ:PL 0/1:18,10:28:35:83,0,35 1/1:16,16:32:18:153,18,0 1/1:12,11:23:6:51,6,0 1/1:6,14:20:9:76,9,0
545
+ 1 664834 . T G 64.47 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=24;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=10.62;MQ0=12;QD=4.61 GT:AD:DP:GQ:PL 1/1:0,9:9:6:43,6,0 1/1:0,5:5:6:46,6,0 ./. ./.
546
+ 1 667666 . T A 700.66 PASS AC=8;AF=1.00;AN=8;DP=27;Dels=0.00;FS=0.000;HaplotypeScore=0.3281;MLEAC=8;MLEAF=1.00;MQ=33.49;MQ0=2;QD=25.95 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0 1/1:0,7:7:18:199,18,0 1/1:0,8:8:18:208,18,0 1/1:0,10:10:24:270,24,0
547
+ 1 669028 . A T 55.33 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.149;DP=173;Dels=0.00;FS=22.271;HaplotypeScore=1.1637;MLEAC=2;MLEAF=0.250;MQ=18.34;MQ0=90;MQRankSum=-3.995;QD=0.62;ReadPosRankSum=-1.052 GT:AD:DP:GQ:PL 0/0:38,1:39:27:0,27,439 0/0:42,3:45:10:0,10,398 0/1:34,6:40:57:57,0,361 0/1:40,8:48:32:32,0,422
548
+ 1 669590 . G T 138.56 PASS AC=2;AF=0.250;AN=8;BaseQRankSum=-5.020;DP=152;Dels=0.00;FS=45.619;HaplotypeScore=1.4448;MLEAC=2;MLEAF=0.250;MQ=34.68;MQ0=3;MQRankSum=-1.356;QD=1.75;ReadPosRankSum=-0.966 GT:AD:DP:GQ:PL 0/0:33,3:36:4:0,4,743 0/0:34,3:37:14:0,14,927 0/1:36,6:42:59:59,0,984 0/1:29,8:37:99:112,0,710
549
+ 1 672209 . G A 495.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=4.650;DP=297;Dels=0.00;FS=0.000;HaplotypeScore=0.7118;MLEAC=4;MLEAF=0.500;MQ=26.81;MQ0=41;MQRankSum=-4.356;QD=1.67;ReadPosRankSum=0.803 GT:AD:DP:GQ:PL 0/1:50,17:67:99:254,0,866 0/1:66,13:79:60:60,0,1262 0/1:61,11:72:42:42,0,1333 0/1:60,19:79:99:172,0,1058
550
+ 1 672330 . G C 83.52 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=2.786;DP=205;Dels=0.00;FS=3.847;HaplotypeScore=0.2892;MLEAC=1;MLEAF=0.125;MQ=12.56;MQ0=129;MQRankSum=-1.462;QD=1.90;ReadPosRankSum=1.517 GT:AD:DP:GQ:PL 0/1:34,10:44:99:115,0,212 0/0:53,2:55:12:0,12,426 0/0:41,4:45:19:0,19,338 0/0:54,7:61:29:0,29,412
551
+ 1 672663 . T G 736.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-8.605;DP=260;Dels=0.00;FS=0.000;HaplotypeScore=1.7242;MLEAC=4;MLEAF=0.500;MQ=18.92;MQ0=145;MQRankSum=-3.308;QD=2.83;ReadPosRankSum=-0.253 GT:AD:DP:GQ:PL 0/1:41,20:61:99:131,0,250 0/1:51,26:77:99:246,0,535 0/1:49,19:68:99:172,0,389 0/1:39,15:54:99:220,0,437
552
+ 1 672823 . C G 280.93 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=5.049;DP=249;Dels=0.00;FS=35.168;HaplotypeScore=1.6091;MLEAC=3;MLEAF=0.375;MQ=35.87;MQ0=59;MQRankSum=-8.119;QD=1.61;ReadPosRankSum=-4.355 GT:AD:DP:GQ:PL 0/1:35,26:61:24:24,0,829 0/0:52,23:75:27:0,27,1321 0/1:34,17:51:80:80,0,936 0/1:36,25:62:99:211,0,999
553
+ 1 672854 . G C 81.36 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.067;DP=261;Dels=0.00;FS=65.513;HaplotypeScore=2.4125;MLEAC=4;MLEAF=0.500;MQ=34.91;MQ0=46;MQRankSum=-5.321;QD=0.31;ReadPosRankSum=1.623 GT:AD:DP:GQ:PL 0/1:37,13:51:30:30,0,652 0/1:56,15:71:33:33,0,1272 0/1:56,13:69:8:8,0,1443 0/1:56,14:70:42:42,0,1315
554
+ 1 673117 . T C 756.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.227;DP=210;Dels=0.00;FS=20.317;HaplotypeScore=2.0838;MLEAC=4;MLEAF=0.500;MQ=33.36;MQ0=10;MQRankSum=-10.124;QD=3.60;ReadPosRankSum=0.595 GT:AD:DP:GQ:PL 0/1:26,16:42:99:202,0,645 0/1:40,15:55:99:162,0,1131 0/1:44,19:63:99:164,0,1247 0/1:32,17:49:99:261,0,892
555
+ 1 673223 . T G 307.32 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-2.115;DP=171;Dels=0.00;FS=16.992;HaplotypeScore=0.7368;MLEAC=3;MLEAF=0.375;MQ=22.97;MQ0=60;MQRankSum=0.255;QD=2.46;ReadPosRankSum=-1.042 GT:AD:DP:GQ:PL 0/1:26,5:31:39:39,0,291 0/0:36,10:46:12:0,12,647 0/1:26,12:38:64:64,0,386 0/1:41,15:56:99:238,0,655
556
+ 1 673236 . G T 90.42 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=-0.540;DP=148;Dels=0.00;FS=28.220;HaplotypeScore=0.7051;MLEAC=1;MLEAF=0.125;MQ=22.78;MQ0=47;MQRankSum=0.033;QD=1.85;ReadPosRankSum=0.692 GT:AD:DP:GQ:PL 0/0:26,1:27:15:0,15,331 0/0:35,5:40:42:0,42,642 0/0:27,5:32:23:0,23,500 0/1:39,10:49:99:122,0,613
557
+ 1 673327 . G A 907.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=3.178;DP=273;Dels=0.00;FS=135.332;HaplotypeScore=1.3901;MLEAC=4;MLEAF=0.500;MQ=24.88;MQ0=96;MQRankSum=-7.473;QD=3.33;ReadPosRankSum=0.508 GT:AD:DP:GQ:PL 0/1:28,18:46:99:99,0,713 0/1:42,36:78:99:332,0,900 0/1:30,44:74:99:275,0,476 0/1:43,32:75:99:234,0,748
558
+ 1 673712 . C T 247.32 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.268;DP=345;Dels=0.00;FS=1.273;HaplotypeScore=1.5077;MLEAC=3;MLEAF=0.375;MQ=19.21;MQ0=152;MQRankSum=2.786;QD=0.99;ReadPosRankSum=1.470 GT:AD:DP:GQ:PL 0/1:71,7:78:10:10,0,671 0/0:88,8:96:77:0,77,1547 0/1:57,15:72:99:221,0,748 0/1:84,15:99:50:50,0,1285
559
+ 1 674421 . A T 1179.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.485;DP=214;Dels=0.00;FS=43.175;HaplotypeScore=5.5839;MLEAC=4;MLEAF=0.500;MQ=41.93;MQ0=28;MQRankSum=-9.195;QD=5.51;ReadPosRankSum=-0.587 GT:AD:DP:GQ:PL 0/1:23,19:42:99:355,0,609 0/1:27,32:59:99:416,0,732 0/1:36,15:51:99:124,0,991 0/1:36,26:62:99:317,0,1047
560
+ 1 674434 . A T 705.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.144;DP=217;Dels=0.00;FS=19.295;HaplotypeScore=2.3783;MLEAC=4;MLEAF=0.500;MQ=42.66;MQ0=22;MQRankSum=-5.472;QD=3.25;ReadPosRankSum=0.144 GT:AD:DP:GQ:PL 0/1:32,8:40:99:123,0,790 0/1:41,17:58:99:333,0,932 0/1:45,9:54:99:159,0,1133 0/1:54,11:65:99:123,0,1347
561
+ 1 674456 . G A 153.90 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.702;DP=238;Dels=0.00;FS=8.086;HaplotypeScore=1.4249;MLEAC=2;MLEAF=0.250;MQ=40.98;MQ0=22;MQRankSum=-4.204;QD=1.37;ReadPosRankSum=-1.786 GT:AD:DP:GQ:PL 0/1:34,10:44:99:148,0,901 0/0:62,6:68:65:0,65,1527 0/0:55,3:58:91:0,91,1526 0/1:57,11:68:40:40,0,1496
562
+ 1 675146 . G A 914.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.102;DP=74;Dels=0.00;FS=0.000;HaplotypeScore=0.2167;MLEAC=8;MLEAF=1.00;MQ=15.31;MQ0=29;MQRankSum=1.575;QD=12.36;ReadPosRankSum=0.945 GT:AD:DP:GQ:PL 1/1:3,12:15:24:210,24,0 1/1:6,16:22:30:267,30,0 1/1:5,16:22:24:203,24,0 1/1:3,12:15:30:260,30,0
563
+ 1 679604 . C A 631.44 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=226;Dels=0.00;FS=0.000;HaplotypeScore=0.2367;MLEAC=8;MLEAF=1.00;MQ=8.39;MQ0=197;QD=2.79 GT:AD:DP:GQ:PL 1/1:15,30:46:15:148,15,0 1/1:27,33:60:24:214,24,0 1/1:22,28:50:15:127,15,0 1/1:30,40:70:18:168,18,0
564
+ 1 679692 . C T 68.12 HARD_TO_VALIDATE AC=3;AF=0.750;AN=4;BaseQRankSum=0.000;DP=26;Dels=0.00;FS=6.990;HaplotypeScore=0.2892;MLEAC=3;MLEAF=0.750;MQ=11.80;MQ0=17;MQRankSum=0.000;QD=4.87;ReadPosRankSum=-0.720 GT:AD:DP:GQ:PL 1/1:3,4:7:9:73,9,0 ./. 0/1:4,3:7:19:23,0,19 ./.
565
+ 1 684862 . G A 146.38 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.059;DP=167;Dels=0.00;FS=0.000;HaplotypeScore=0.1835;MLEAC=3;MLEAF=0.375;MQ=7.74;MQ0=151;MQRankSum=0.953;QD=1.20;ReadPosRankSum=-1.694 GT:AD:DP:GQ:PL 0/0:32,13:45:6:0,6,53 0/1:29,13:42:51:51,0,51 0/1:29,14:43:74:74,0,79 0/1:23,14:37:23:54,0,23
566
+ 1 694877 . A C 298.27 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=48;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=11.83;MQ0=34;QD=6.21 GT:AD:DP:GQ:PL 1/1:8,4:12:12:117,12,0 1/1:10,4:14:9:89,9,0 1/1:7,3:10:3:29,3,0 1/1:7,5:12:9:88,9,0
567
+ 1 701236 . C T 75.44 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=2.578;DP=208;Dels=0.00;FS=3.388;HaplotypeScore=1.2569;MLEAC=2;MLEAF=0.250;MQ=20.87;MQ0=66;MQRankSum=-1.990;QD=0.74;ReadPosRankSum=2.229 GT:AD:DP:GQ:PL 0/1:37,6:43:35:35,0,446 0/0:48,2:50:54:0,54,707 0/0:51,5:56:1:0,1,787 0/1:48,11:59:72:72,0,871
568
+ 1 701270 . A C 160.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.339;DP=198;Dels=0.00;FS=0.000;HaplotypeScore=0.4567;MLEAC=4;MLEAF=0.500;MQ=15.96;MQ0=107;MQRankSum=-1.743;QD=0.81;ReadPosRankSum=0.005 GT:AD:DP:GQ:PL 0/1:40,5:45:29:29,0,320 0/1:41,6:47:30:30,0,292 0/1:45,12:57:47:47,0,542 0/1:41,8:49:87:87,0,440
569
+ 1 701946 . A G 455.77 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=27;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=22.36;MQ0=6;QD=16.88 GT:AD:DP:GQ:PL 1/1:0,6:6:15:153,15,0 1/1:0,9:9:12:121,12,0 1/1:0,2:2:6:59,6,0 1/1:0,10:10:15:148,15,0
570
+ 1 702614 . A G 93.62 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=2.284;DP=142;Dels=0.00;FS=45.828;HaplotypeScore=1.1606;MLEAC=2;MLEAF=0.250;MQ=23.11;MQ0=23;MQRankSum=-3.472;QD=1.30;ReadPosRankSum=0.421 GT:AD:DP:GQ:PL 0/1:31,4:36:10:10,0,609 0/0:33,3:36:55:0,55,706 0/0:30,4:34:24:0,24,589 0/1:26,10:36:99:117,0,456
571
+ 1 704367 . T C 434.68 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=27;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=25.56;MQ0=5;QD=16.10 GT:AD:DP:GQ:PL 1/1:0,4:4:9:78,9,0 1/1:0,11:11:18:167,18,0 1/1:0,6:6:15:136,15,0 1/1:0,6:6:9:79,9,0
572
+ 1 706368 . A G 3076.35 PASS AC=8;AF=1.00;AN=8;DP=119;Dels=0.00;FS=0.000;HaplotypeScore=1.0088;MLEAC=8;MLEAF=1.00;MQ=40.65;MQ0=4;QD=25.85 GT:AD:DP:GQ:PL 1/1:0,32:32:72:730,72,0 1/1:0,35:35:99:983,102,0 1/1:0,15:15:42:408,42,0 1/1:1,36:37:99:981,102,0
573
+ 1 706778 . G A 2259.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=151;Dels=0.00;FS=0.000;HaplotypeScore=0.2416;MLEAC=8;MLEAF=1.00;MQ=21.80;MQ0=73;QD=14.96 GT:AD:DP:GQ:PL 1/1:16,19:35:54:549,54,0 1/1:18,28:47:75:714,75,0 1/1:11,21:32:45:442,45,0 1/1:16,21:37:60:580,60,0
574
+ 1 708091 . A G 199.68 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.488;DP=23;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=16.63;MQ0=9;MQRankSum=-0.992;QD=8.68;ReadPosRankSum=-1.736 GT:AD:DP:GQ:PL 1/1:0,5:5:3:26,3,0 1/1:1,4:5:6:59,6,0 1/1:0,6:6:9:79,9,0 1/1:0,7:7:6:60,6,0
575
+ 1 713442 . T C 74.25 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.131;DP=122;Dels=0.00;FS=40.021;HaplotypeScore=1.4421;MLEAC=3;MLEAF=0.375;MQ=48.23;MQ0=4;MQRankSum=-6.297;QD=0.86;ReadPosRankSum=-4.276 GT:AD:DP:GQ:PL 0/1:24,7:31:46:46,0,665 0/1:22,4:26:47:47,0,626 0/1:24,5:29:15:15,0,717 0/0:29,7:36:15:0,15,871
576
+ 1 714427 . G A 3373.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.699;DP=108;Dels=0.00;FS=0.000;HaplotypeScore=0.5567;MLEAC=8;MLEAF=1.00;MQ=40.64;MQ0=2;MQRankSum=-1.732;QD=31.23;ReadPosRankSum=0.544 GT:AD:DP:GQ:PL 1/1:2,25:28:72:800,72,0 1/1:0,27:27:78:848,78,0 1/1:0,24:24:72:812,72,0 1/1:0,29:29:87:939,87,0
577
+ 1 715348 . T G 3762.35 PASS AC=8;AF=1.00;AN=8;DP=116;Dels=0.00;FS=0.000;HaplotypeScore=0.7625;MLEAC=8;MLEAF=1.00;MQ=48.55;MQ0=0;QD=32.43 GT:AD:DP:GQ:PL 1/1:0,26:26:72:825,72,0 1/1:0,26:27:78:857,78,0 1/1:0,31:31:90:1014,90,0 1/1:0,32:32:96:1092,96,0
578
+ 1 715996 . A T 1883.57 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=0.366;DP=104;Dels=0.00;FS=9.218;HaplotypeScore=1.6757;MLEAC=7;MLEAF=0.875;MQ=28.09;MQ0=31;MQRankSum=-0.423;QD=18.11;ReadPosRankSum=0.000 GT:AD:DP:GQ:PL 0/1:2,29:31:6:463,0,6 1/1:1,19:20:9:368,9,0 1/1:0,23:23:45:472,45,0 1/1:0,30:30:57:609,57,0
579
+ 1 718386 . A G 2127.35 PASS AC=8;AF=1.00;AN=8;DP=98;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=33.56;MQ0=9;QD=21.71 GT:AD:DP:GQ:PL 1/1:0,18:18:39:370,39,0 1/1:0,42:42:99:993,108,0 1/1:0,17:17:33:302,33,0 1/1:0,21:21:54:488,54,0
580
+ 1 718555 . T C 2941.35 PASS AC=8;AF=1.00;AN=8;DP=104;Dels=0.00;FS=0.000;HaplotypeScore=0.7480;MLEAC=8;MLEAF=1.00;MQ=45.57;MQ0=1;QD=28.28 GT:AD:DP:GQ:PL 1/1:1,31:32:87:935,87,0 1/1:0,30:30:87:873,87,0 1/1:0,21:21:51:534,51,0 1/1:0,21:21:60:625,60,0
581
+ 1 720240 . T C 2785.35 PASS AC=8;AF=1.00;AN=8;DP=101;Dels=0.00;FS=0.000;HaplotypeScore=0.1835;MLEAC=8;MLEAF=1.00;MQ=35.18;MQ0=7;QD=27.58 GT:AD:DP:GQ:PL 1/1:0,21:21:48:521,48,0 1/1:0,31:31:81:901,81,0 1/1:0,22:22:51:578,51,0 1/1:0,27:27:72:811,72,0
582
+ 1 720797 . G A 2208.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=94;Dels=0.00;FS=0.000;HaplotypeScore=0.4984;MLEAC=8;MLEAF=1.00;MQ=30.85;MQ0=14;QD=23.49 GT:AD:DP:GQ:PL 1/1:0,18:19:36:412,36,0 1/1:0,30:30:69:774,69,0 1/1:0,20:20:42:452,42,0 1/1:0,25:25:54:596,54,0
583
+ 1 723891 . G C 3628.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.647;DP=123;Dels=0.00;FS=0.000;HaplotypeScore=2.2234;MLEAC=8;MLEAF=1.00;MQ=48.41;MQ0=1;MQRankSum=1.391;QD=29.50;ReadPosRankSum=-0.426 GT:AD:DP:GQ:PL 1/1:2,28:30:72:750,72,0 1/1:0,35:35:99:1044,99,0 1/1:0,28:28:84:917,84,0 1/1:0,30:30:87:943,87,0
584
+ 1 724189 . G A 77.14 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.284;DP=803;Dels=0.00;FS=7.187;HaplotypeScore=40.5266;MLEAC=2;MLEAF=0.250;MQ=28.83;MQ0=351;MQRankSum=2.117;QD=0.21;ReadPosRankSum=-3.949 GT:AD:DP:GQ:PL 0/1:208,7:219:15:15,0,1499 0/0:236,3:242:80:0,80,1486 0/1:135,10:148:96:96,0,1218 0/0:188,3:193:99:0,199,2457
585
+ 1 724452 . C G 237.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.016;DP=298;Dels=0.00;FS=10.852;HaplotypeScore=6.2074;MLEAC=3;MLEAF=0.375;MQ=50.84;MQ0=30;MQRankSum=-6.950;QD=1.02;ReadPosRankSum=-4.428 GT:AD:DP:GQ:PL 0/0:57,8:65:28:0,28,1474 0/1:77,13:90:76:76,0,1910 0/1:60,10:70:48:48,0,1485 0/1:62,11:73:99:148,0,1591
586
+ 1 724468 . G A 769.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.126;DP=414;Dels=0.00;FS=66.149;HaplotypeScore=15.6992;MLEAC=4;MLEAF=0.500;MQ=43.84;MQ0=74;MQRankSum=-8.796;QD=1.86;ReadPosRankSum=0.671 GT:AD:DP:GQ:PL 0/1:78,24:102:99:167,0,1443 0/1:85,25:110:99:160,0,1794 0/1:74,21:96:99:122,0,1582 0/1:76,30:106:99:353,0,1435
587
+ 1 724469 . A T 117.92 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.732;DP=427;Dels=0.00;FS=18.603;HaplotypeScore=15.6865;MLEAC=3;MLEAF=0.375;MQ=43.13;MQ0=75;MQRankSum=-3.920;QD=0.36;ReadPosRankSum=4.049 GT:AD:DP:GQ:PL 0/0:95,7:103:99:0,114,1875 0/1:102,13:115:55:55,0,1910 0/1:88,10:98:23:23,0,1679 0/1:100,10:110:74:74,0,1810
588
+ 1 724474 . A C 60.35 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-4.064;DP=473;Dels=0.00;FS=19.048;HaplotypeScore=21.6100;MLEAC=3;MLEAF=0.375;MQ=41.40;MQ0=84;MQRankSum=-2.972;QD=0.17;ReadPosRankSum=5.534 GT:AD:DP:GQ:PL 0/0:106,6:113:99:0,136,2060 0/1:113,13:126:22:22,0,1944 0/1:102,10:112:10:10,0,1823 0/1:111,10:122:62:62,0,1867
589
+ 1 724475 . T A 137.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.759;DP=477;Dels=0.00;FS=21.882;HaplotypeScore=22.1092;MLEAC=3;MLEAF=0.375;MQ=41.09;MQ0=85;MQRankSum=-2.874;QD=0.38;ReadPosRankSum=5.748 GT:AD:DP:GQ:PL 0/0:101,11:112:72:0,72,1910 0/1:116,14:130:52:52,0,1993 0/1:98,14:112:49:49,0,1761 0/1:110,13:123:71:71,0,1896
590
+ 1 724500 . C T 73.12 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=6.973;DP=384;Dels=0.00;FS=0.000;HaplotypeScore=33.6643;MLEAC=2;MLEAF=0.250;MQ=44.74;MQ0=54;MQRankSum=-9.354;QD=0.39;ReadPosRankSum=-0.020 GT:AD:DP:GQ:PL 0/1:67,13:87:25:25,0,1333 0/0:76,20:103:5:0,5,1645 0/0:67,22:92:77:0,77,1551 0/1:76,24:102:81:81,0,1386
591
+ 1 724506 . G T 160.97 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=2.648;DP=474;Dels=0.01;FS=15.756;HaplotypeScore=39.5086;MLEAC=3;MLEAF=0.375;MQ=40.59;MQ0=91;MQRankSum=-4.162;QD=0.43;ReadPosRankSum=4.224 GT:AD:DP:GQ:PL 0/0:86,8:97:76:0,76,1783 0/1:103,11:117:66:66,0,1752 0/1:110,11:123:18:18,0,1817 0/1:114,16:133:99:111,0,1762
592
+ 1 724621 . C G 48.98 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-1.140;DP=261;Dels=0.05;FS=62.652;HaplotypeScore=35.7074;MLEAC=2;MLEAF=0.250;MQ=33.85;MQ0=49;MQRankSum=-7.729;QD=0.37;ReadPosRankSum=1.650 GT:AD:DP:GQ:PL 0/0:51,9:63:96:0,96,1320 0/1:40,16:61:63:63,0,853 0/1:38,20:64:20:20,0,725 0/0:47,8:60:33:0,33,1064
593
+ 1 724622 . A G 99 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.715;DP=267;Dels=0.04;FS=38.621;HaplotypeScore=36.4808;MLEAC=2;MLEAF=0.250;MQ=33.79;MQ0=50;MQRankSum=-7.330;QD=0.73;ReadPosRankSum=1.954 GT:AD:DP:GQ:PL 0/0:55,10:65:59:0,59,1297 0/1:48,14:63:19:19,0,938 0/1:40,24:65:99:114,0,748 0/0:50,11:61:71:0,71,1198
594
+ 1 724637 . G A 66.83 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.060;DP=617;Dels=0.00;FS=81.596;HaplotypeScore=52.2720;MLEAC=3;MLEAF=0.375;MQ=26.50;MQ0=153;MQRankSum=-2.242;QD=0.14;ReadPosRankSum=0.775 GT:AD:DP:GQ:PL 0/0:104,11:124:99:0,141,1827 0/1:158,16:184:12:12,0,2042 0/1:113,18:135:80:80,0,1319 0/1:154,15:174:8:8,0,1916
595
+ 1 724642 . G A 210.94 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=8.472;DP=642;Dels=0.00;FS=92.306;HaplotypeScore=70.2990;MLEAC=3;MLEAF=0.375;MQ=25.48;MQ0=170;MQRankSum=-0.623;QD=0.45;ReadPosRankSum=4.356 GT:AD:DP:GQ:PL 0/1:110,14:125:21:21,0,1470 0/1:168,30:199:99:173,0,1931 0/1:125,15:142:51:51,0,1295 0/0:166,10:176:68:0,68,1914
596
+ 1 724652 . C T 823.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.732;DP=667;Dels=0.00;FS=39.500;HaplotypeScore=88.9382;MLEAC=4;MLEAF=0.500;MQ=25.12;MQ0=176;MQRankSum=-4.328;QD=1.24;ReadPosRankSum=-8.407 GT:AD:DP:GQ:PL 0/1:85,30:125:99:291,0,1113 0/1:136,35:201:99:244,0,1836 0/1:110,29:155:99:133,0,1425 0/1:127,49:185:99:188,0,1727
597
+ 1 724655 . T A 210.95 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-4.353;DP=677;Dels=0.00;FS=58.563;HaplotypeScore=76.7636;MLEAC=2;MLEAF=0.250;MQ=24.86;MQ0=181;MQRankSum=1.204;QD=0.64;ReadPosRankSum=3.490 GT:AD:DP:GQ:PL 0/1:107,11:126:50:50,0,1303 0/1:163,22:203:99:195,0,1869 0/0:146,9:162:20:0,20,1657 0/0:164,11:186:99:0,107,2175
598
+ 1 724657 . G A 183.33 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.640;DP=676;Dels=0.00;FS=22.131;HaplotypeScore=73.1780;MLEAC=2;MLEAF=0.250;MQ=24.72;MQ0=185;MQRankSum=-2.864;QD=0.60;ReadPosRankSum=-6.350 GT:AD:DP:GQ:PL 0/1:104,20:124:99:202,0,1088 0/0:183,22:205:71:0,71,2326 0/0:147,16:163:2:0,2,1650 0/1:154,30:184:13:13,0,2018
599
+ 1 724673 . A T 377.95 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.510;DP=657;Dels=0.00;FS=75.894;HaplotypeScore=49.0740;MLEAC=4;MLEAF=0.500;MQ=26.27;MQ0=185;MQRankSum=-1.122;QD=0.58;ReadPosRankSum=2.502 GT:AD:DP:GQ:PL 0/1:108,13:124:27:27,0,1301 0/1:170,30:203:99:145,0,2202 0/1:127,24:153:99:210,0,1413 0/1:147,25:177:28:28,0,1903
600
+ 1 724696 . A T 74.93 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=3.783;DP=329;Dels=0.00;FS=47.944;HaplotypeScore=34.0239;MLEAC=2;MLEAF=0.250;MQ=33.86;MQ0=67;MQRankSum=-4.329;QD=0.46;ReadPosRankSum=0.673 GT:AD:DP:GQ:PL 0/0:60,4:70:39:0,39,1186 0/0:60,11:94:31:0,31,1308 0/1:55,9:76:25:25,0,1006 0/1:64,13:88:84:84,0,1273
601
+ 1 724830 . A T 422.95 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=2.433;DP=136;Dels=0.00;FS=103.975;HaplotypeScore=2.6302;MLEAC=4;MLEAF=0.500;MQ=46.13;MQ0=10;MQRankSum=-8.339;QD=3.11;ReadPosRankSum=-5.799 GT:AD:DP:GQ:PL 0/1:27,12:39:29:29,0,814 0/1:21,16:37:99:252,0,569 0/1:17,10:28:68:68,0,457 0/1:20,12:32:99:106,0,558
602
+ 1 724836 . T G 434.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.960;DP=161;Dels=0.00;FS=104.283;HaplotypeScore=4.2218;MLEAC=4;MLEAF=0.500;MQ=40.73;MQ0=28;MQRankSum=-6.761;QD=2.70;ReadPosRankSum=-1.426 GT:AD:DP:GQ:PL 0/1:28,12:40:45:45,0,681 0/1:27,16:43:99:250,0,543 0/1:24,13:37:68:68,0,457 0/1:29,12:41:99:104,0,542
603
+ 1 724837 . G A 387.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-1.585;DP=174;Dels=0.00;FS=97.023;HaplotypeScore=4.0051;MLEAC=4;MLEAF=0.500;MQ=39.06;MQ0=34;MQRankSum=-5.718;QD=2.23;ReadPosRankSum=-0.248 GT:AD:DP:GQ:PL 0/1:31,12:43:30:30,0,711 0/1:27,16:43:99:223,0,541 0/1:31,10:41:66:66,0,433 0/1:35,12:47:99:101,0,572
604
+ 1 724869 . C A 800.96 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.268;DP=98;Dels=0.00;FS=54.326;HaplotypeScore=9.9308;MLEAC=4;MLEAF=0.500;MQ=36.18;MQ0=22;MQRankSum=5.139;QD=8.17;ReadPosRankSum=0.132 GT:AD:DP:GQ:PL 0/1:8,12:20:23:359,0,23 0/1:22,7:29:99:185,0,173 0/1:13,8:21:99:169,0,125 0/1:22,6:28:99:120,0,301
605
+ 1 724871 . C G 727.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.290;DP=97;Dels=0.00;FS=61.154;HaplotypeScore=9.6850;MLEAC=4;MLEAF=0.500;MQ=35.37;MQ0=22;MQRankSum=4.673;QD=7.50;ReadPosRankSum=-0.582 GT:AD:DP:GQ:PL 0/1:9,10:19:62:301,0,62 0/1:23,7:30:99:192,0,208 0/1:14,6:20:99:142,0,127 0/1:20,6:28:99:125,0,311
606
+ 1 724873 . A C 66.46 HARD_TO_VALIDATE AC=1;AF=0.125;AN=8;BaseQRankSum=-3.047;DP=100;Dels=0.00;FS=20.885;HaplotypeScore=5.2746;MLEAC=1;MLEAF=0.125;MQ=35.79;MQ0=22;MQRankSum=-0.197;QD=2.22;ReadPosRankSum=-0.553 GT:AD:DP:GQ:PL 0/0:20,0:20:42:0,42,482 0/0:29,1:30:13:0,13,420 0/0:20,0:20:30:0,30,327 0/1:25,5:30:98:98,0,384
607
+ 1 724928 . A T 102.58 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.226;DP=194;Dels=0.00;FS=46.560;HaplotypeScore=14.3356;MLEAC=4;MLEAF=0.500;MQ=30.42;MQ0=41;MQRankSum=-1.890;QD=0.53;ReadPosRankSum=2.871 GT:AD:DP:GQ:PL 0/1:39,6:46:50:50,0,623 0/1:46,6:53:12:12,0,555 0/1:25,5:32:2:2,0,447 0/1:49,12:63:69:69,0,855
608
+ 1 724931 . T G 112.12 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.367;DP=217;Dels=0.00;FS=49.098;HaplotypeScore=11.9297;MLEAC=4;MLEAF=0.500;MQ=30.52;MQ0=45;MQRankSum=-3.872;QD=0.52;ReadPosRankSum=1.807 GT:AD:DP:GQ:PL 0/1:38,8:52:44:44,0,716 0/1:38,16:61:12:12,0,610 0/1:23,9:36:27:27,0,441 0/1:51,15:68:61:61,0,927
609
+ 1 724948 . T A 412.45 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=4.383;DP=481;Dels=0.00;FS=26.325;HaplotypeScore=120.9025;MLEAC=3;MLEAF=0.375;MQ=23.45;MQ0=174;MQRankSum=-1.371;QD=0.86;ReadPosRankSum=-2.968 GT:AD:DP:GQ:PL 0/1:71,24:105:38:38,0,589 0/1:85,39:130:99:218,0,750 0/1:72,28:106:99:108,0,681 0/1:96,38:140:99:116,0,841
610
+ 1 724972 . A G 54.91 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.543;DP=639;Dels=0.00;FS=6.136;HaplotypeScore=99.7438;MLEAC=2;MLEAF=0.250;MQ=25.50;MQ0=217;MQRankSum=-2.643;QD=0.18;ReadPosRankSum=-0.419 GT:AD:DP:GQ:PL 0/0:118,11:137:99:0,138,1467 0/0:167,17:196:69:0,69,1628 0/1:131,14:155:32:32,0,1270 0/1:122,15:151:57:57,0,896
611
+ 1 724979 . C A 100.45 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=0.451;DP=567;Dels=0.01;FS=0.000;HaplotypeScore=101.1796;MLEAC=1;MLEAF=0.125;MQ=28.01;MQ0=176;MQRankSum=-5.151;QD=0.76;ReadPosRankSum=7.155 GT:AD:DP:GQ:PL 0/0:99,14:122:40:0,40,1287 0/0:126,23:165:22:0,22,1647 0/0:104,23:141:3:0,3,1456 0/1:84,34:131:99:131,0,793
612
+ 1 724981 . A C 118.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-3.046;DP=574;Dels=0.01;FS=1.318;HaplotypeScore=97.5375;MLEAC=1;MLEAF=0.125;MQ=28.18;MQ0=175;MQRankSum=-4.106;QD=0.97;ReadPosRankSum=4.643 GT:AD:DP:GQ:PL 0/1:79,25:122:99:150,0,1030 0/0:121,26:165:99:0,102,1891 0/0:109,21:144:35:0,35,1509 0/0:95,20:135:78:0,78,1084
613
+ 1 725022 . T G 415 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.523;DP=282;Dels=0.02;FS=10.837;HaplotypeScore=53.7479;MLEAC=4;MLEAF=0.500;MQ=42.66;MQ0=35;MQRankSum=-7.535;QD=1.47;ReadPosRankSum=0.455 GT:AD:DP:GQ:PL 0/1:36,20:60:99:163,0,696 0/1:58,18:80:99:170,0,1253 0/1:59,20:84:17:17,0,1482 0/1:35,16:52:97:97,0,761
614
+ 1 725026 . T C 264.93 HARD_TO_VALIDATE AC=2;AF=0.250;AN=8;BaseQRankSum=-1.816;DP=271;Dels=0.02;FS=0.807;HaplotypeScore=67.7715;MLEAC=2;MLEAF=0.250;MQ=43.70;MQ0=28;MQRankSum=-7.950;QD=1.91;ReadPosRankSum=-1.799 GT:AD:DP:GQ:PL 0/1:43,11:56:99:126,0,827 0/0:62,15:79:59:0,59,1544 0/1:56,23:80:99:173,0,1480 0/0:42,9:51:22:0,22,964
615
+ 1 725040 . C T 396.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=7.294;DP=395;Dels=0.03;FS=19.945;HaplotypeScore=79.9945;MLEAC=3;MLEAF=0.375;MQ=39.08;MQ0=51;MQRankSum=-7.297;QD=1.45;ReadPosRankSum=-3.329 GT:AD:DP:GQ:PL 0/1:52,16:73:99:112,0,1053 0/0:91,26:120:31:0,31,1819 0/1:82,17:100:99:106,0,1819 0/1:59,30:92:99:213,0,1021
616
+ 1 725046 . T G 223.75 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.562;DP=543;Dels=0.00;FS=1.019;HaplotypeScore=80.3520;MLEAC=3;MLEAF=0.375;MQ=34.71;MQ0=102;MQRankSum=-4.929;QD=0.54;ReadPosRankSum=-2.126 GT:AD:DP:GQ:PL 0/1:85,22:109:19:19,0,1411 0/1:136,27:167:76:76,0,2384 0/0:109,21:131:9:0,9,2272 0/1:100,32:135:99:162,0,1621
617
+ 1 725071 . G T 99.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=1.554;DP=993;Dels=0.00;FS=8.241;HaplotypeScore=92.3319;MLEAC=1;MLEAF=0.125;MQ=23.64;MQ0=304;MQRankSum=0.068;QD=0.40;ReadPosRankSum=-1.452 GT:AD:DP:GQ:PL 0/0:225,15:249:99:0,206,2673 0/0:224,11:244:99:0,145,2261 0/1:222,22:250:99:131,0,2096 0/0:220,21:250:75:0,75,2546
618
+ 1 725086 . G C 53.57 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-5.738;DP=997;Dels=0.00;FS=2.669;HaplotypeScore=133.1976;MLEAC=1;MLEAF=0.125;MQ=21.70;MQ0=329;MQRankSum=0.562;QD=0.21;ReadPosRankSum=1.420 GT:AD:DP:GQ:PL 0/0:236,5:248:99:0,211,2673 0/0:227,13:249:99:0,144,2182 0/1:223,21:250:85:85,0,1852 0/0:223,19:250:10:0,10,2019
619
+ 1 725114 . A T 98.97 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.533;DP=994;Dels=0.00;FS=30.358;HaplotypeScore=115.3605;MLEAC=2;MLEAF=0.250;MQ=21.35;MQ0=325;MQRankSum=0.180;QD=0.20;ReadPosRankSum=-4.402 GT:AD:DP:GQ:PL 0/0:237,10:248:28:0,28,2154 0/1:226,20:247:8:8,0,2090 0/1:228,18:249:99:124,0,2179 0/0:228,18:250:43:0,43,2267
620
+ 1 725126 . G T 33.34 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=0.089;DP=817;Dels=0.01;FS=79.446;HaplotypeScore=160.8698;MLEAC=1;MLEAF=0.125;MQ=22.71;MQ0=238;MQRankSum=1.974;QD=0.17;ReadPosRankSum=0.098 GT:AD:DP:GQ:PL 0/0:176,5:196:37:0,37,1888 0/0:194,7:218:33:0,33,1735 0/1:180,10:200:65:65,0,2064 0/0:172,8:197:48:0,48,1861
621
+ 1 725127 . A G 2048.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.362;DP=767;Dels=0.02;FS=133.910;HaplotypeScore=185.2120;MLEAC=4;MLEAF=0.500;MQ=23.35;MQ0=212;MQRankSum=-1.894;QD=2.67;ReadPosRankSum=-0.895 GT:AD:DP:GQ:PL 0/1:112,58:185:99:668,0,1050 0/1:122,66:197:99:664,0,1179 0/1:127,48:185:99:498,0,1514 0/1:116,47:181:99:251,0,1564
622
+ 1 725130 . T A 38.35 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-2.996;DP=732;Dels=0.05;FS=20.348;HaplotypeScore=178.7335;MLEAC=1;MLEAF=0.125;MQ=23.69;MQ0=193;MQRankSum=-3.604;QD=0.22;ReadPosRankSum=1.169 GT:AD:DP:GQ:PL 0/0:141,28:172:21:0,21,1859 0/0:159,22:183:91:0,91,2056 0/1:152,20:174:70:70,0,2049 0/0:148,20:169:80:0,80,1916
623
+ 1 725132 . C G 1887.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-6.150;DP=735;Dels=0.02;FS=24.806;HaplotypeScore=184.7278;MLEAC=4;MLEAF=0.500;MQ=23.74;MQ0=195;MQRankSum=-6.161;QD=2.57;ReadPosRankSum=3.590 GT:AD:DP:GQ:PL 0/1:84,73:176:99:562,0,1062 0/1:89,85:196:99:601,0,1128 0/1:91,69:172:99:539,0,1411 0/1:102,60:175:99:218,0,1365
624
+ 1 725145 . T A 208.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.418;DP=878;Dels=0.00;FS=12.992;HaplotypeScore=113.2956;MLEAC=3;MLEAF=0.375;MQ=23.10;MQ0=255;MQRankSum=-0.871;QD=0.32;ReadPosRankSum=4.834 GT:AD:DP:GQ:PL 0/1:195,20:216:26:26,0,2149 0/1:199,25:224:99:128,0,2179 0/1:183,21:205:89:89,0,2231 0/0:212,17:230:53:0,53,2247
625
+ 1 725150 . T G 276.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-4.260;DP=721;Dels=0.00;FS=2.199;HaplotypeScore=103.5960;MLEAC=3;MLEAF=0.375;MQ=24.14;MQ0=209;MQRankSum=-2.620;QD=0.52;ReadPosRankSum=3.842 GT:AD:DP:GQ:PL 0/1:142,24:177:34:34,0,1809 0/1:162,27:196:85:85,0,1979 0/1:126,29:159:99:192,0,1686 0/0:160,19:188:40:0,40,1906
626
+ 1 725155 . T A 96.19 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.162;DP=708;Dels=0.00;FS=2.246;HaplotypeScore=104.5786;MLEAC=2;MLEAF=0.250;MQ=24.30;MQ0=204;MQRankSum=-4.596;QD=0.27;ReadPosRankSum=3.607 GT:AD:DP:GQ:PL 0/0:145,17:170:12:0,12,1823 0/1:141,26:193:71:71,0,1859 0/1:124,21:157:59:59,0,1735 0/0:141,21:185:23:0,23,1712
627
+ 1 725156 . A G 2380.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.853;DP=704;Dels=0.00;FS=23.585;HaplotypeScore=92.3189;MLEAC=4;MLEAF=0.500;MQ=24.40;MQ0=204;MQRankSum=-5.666;QD=3.38;ReadPosRankSum=6.019 GT:AD:DP:GQ:PL 0/1:86,78:167:99:655,0,1154 0/1:111,79:193:99:748,0,1316 0/1:89,64:158:99:635,0,1229 0/1:120,65:186:99:375,0,1438
628
+ 1 725175 . A T 146.39 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.606;DP=370;Dels=0.00;FS=21.549;HaplotypeScore=57.1141;MLEAC=4;MLEAF=0.500;MQ=31.87;MQ0=75;MQRankSum=-6.327;QD=0.40;ReadPosRankSum=-3.756 GT:AD:DP:GQ:PL 0/1:58,18:81:57:57,0,1197 0/1:72,17:99:32:32,0,1330 0/1:75,18:99:86:86,0,1389 0/1:72,15:90:2:2,0,1291
629
+ 1 725176 . G T 344.97 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.708;DP=327;Dels=0.00;FS=34.423;HaplotypeScore=60.7658;MLEAC=4;MLEAF=0.500;MQ=33.74;MQ0=53;MQRankSum=-7.467;QD=1.05;ReadPosRankSum=-0.717 GT:AD:DP:GQ:PL 0/1:52,8:72:20:20,0,1256 0/1:54,21:89:79:79,0,1185 0/1:52,17:87:99:151,0,1168 0/1:54,16:79:99:127,0,1173
630
+ 1 725188 . G A 451.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.794;DP=295;Dels=0.02;FS=37.232;HaplotypeScore=39.0034;MLEAC=4;MLEAF=0.500;MQ=36.01;MQ0=54;MQRankSum=-10.782;QD=1.53;ReadPosRankSum=-2.369 GT:AD:DP:GQ:PL 0/1:47,16:63:99:117,0,1034 0/1:52,26:78:52:52,0,1140 0/1:43,30:73:99:219,0,1164 0/1:45,28:75:96:96,0,976
631
+ 1 725199 . G A 40.79 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=-0.434;DP=289;Dels=0.00;FS=29.543;HaplotypeScore=24.3136;MLEAC=3;MLEAF=0.375;MQ=37.82;MQ0=55;MQRankSum=-8.717;QD=0.19;ReadPosRankSum=-0.155 GT:AD:DP:GQ:PL 0/1:56,15:71:28:28,0,1252 0/1:59,18:77:17:17,0,1227 0/0:54,17:72:9:0,9,1377 0/1:51,18:69:29:29,0,975
632
+ 1 725316 . G A 324.03 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.964;DP=798;Dels=0.00;FS=4.707;HaplotypeScore=45.8820;MLEAC=3;MLEAF=0.375;MQ=31.14;MQ0=215;MQRankSum=-0.968;QD=0.53;ReadPosRankSum=-2.387 GT:AD:DP:GQ:PL 0/1:165,23:193:99:154,0,1643 0/1:193,23:219:99:200,0,2225 0/0:160,18:184:48:0,48,1818 0/1:178,18:202:2:2,0,2346
633
+ 1 725356 . G T 534.47 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=2.998;DP=407;Dels=0.00;FS=8.883;HaplotypeScore=40.0059;MLEAC=4;MLEAF=0.500;MQ=40.72;MQ0=81;MQRankSum=-5.999;QD=1.74;ReadPosRankSum=10.397 GT:AD:DP:GQ:PL 0/1:67,19:90:99:231,0,1015 0/1:90,21:111:99:253,0,1731 0/0:83,15:99:1:0,1,1381 0/1:88,16:107:81:81,0,1671
634
+ 1 725536 . G A 488.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.958;DP=985;Dels=0.00;FS=60.171;HaplotypeScore=102.5397;MLEAC=4;MLEAF=0.500;MQ=24.77;MQ0=373;MQRankSum=-0.258;QD=0.50;ReadPosRankSum=-5.301 GT:AD:DP:GQ:PL 0/1:213,19:245:67:67,0,1762 0/1:211,19:241:95:95,0,1572 0/1:216,27:249:99:100,0,1889 0/1:211,30:250:99:259,0,1951
635
+ 1 725550 . T G 80.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=5.476;DP=999;Dels=0.00;FS=10.859;HaplotypeScore=126.8457;MLEAC=2;MLEAF=0.250;MQ=26.58;MQ0=278;MQRankSum=-0.186;QD=0.16;ReadPosRankSum=-5.324 GT:AD:DP:GQ:PL 0/1:223,23:250:39:39,0,2405 0/1:222,23:249:76:76,0,2034 0/0:231,13:250:71:0,71,2343 0/0:241,7:249:99:0,260,3555
636
+ 1 725556 . A G 4076.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.740;DP=910;Dels=0.00;FS=57.760;HaplotypeScore=201.0686;MLEAC=4;MLEAF=0.500;MQ=27.92;MQ0=221;MQRankSum=-5.968;QD=4.48;ReadPosRankSum=-10.523 GT:AD:DP:GQ:PL 0/1:124,71:218:99:704,0,1601 0/1:97,108:231:99:1157,0,876 0/1:108,95:221:99:789,0,1223 0/1:117,108:237:99:1459,0,1462
637
+ 1 725559 . C T 146.17 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.816;DP=914;Dels=0.01;FS=19.450;HaplotypeScore=263.6645;MLEAC=3;MLEAF=0.375;MQ=28.70;MQ0=164;MQRankSum=1.355;QD=0.21;ReadPosRankSum=-3.723 GT:AD:DP:GQ:PL 0/1:186,17:215:29:29,0,2499 0/1:222,15:245:12:12,0,2673 0/0:187,12:206:43:0,43,2252 0/1:206,22:241:99:139,0,3072
638
+ 1 725566 . G A 808.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-4.460;DP=942;Dels=0.02;FS=20.365;HaplotypeScore=261.1380;MLEAC=4;MLEAF=0.500;MQ=28.81;MQ0=155;MQRankSum=0.474;QD=0.86;ReadPosRankSum=-2.013 GT:AD:DP:GQ:PL 0/1:189,23:214:99:162,0,2634 0/1:218,27:245:99:246,0,2510 0/1:189,24:214:99:106,0,2431 0/1:212,32:245:99:327,0,3412
639
+ 1 725569 . T A 2078.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-3.486;DP=954;Dels=0.02;FS=25.177;HaplotypeScore=215.5667;MLEAC=4;MLEAF=0.500;MQ=28.61;MQ0=154;MQRankSum=-7.272;QD=2.18;ReadPosRankSum=1.024 GT:AD:DP:GQ:PL 0/1:139,68:226:99:424,0,2256 0/1:136,92:247:99:619,0,1945 0/1:123,78:220:99:380,0,2098 0/1:157,73:244:99:688,0,2821
640
+ 1 725582 . G A 1356.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.392;DP=998;Dels=0.00;FS=29.615;HaplotypeScore=187.0722;MLEAC=4;MLEAF=0.500;MQ=26.81;MQ0=189;MQRankSum=2.577;QD=1.36;ReadPosRankSum=1.042 GT:AD:DP:GQ:PL 0/1:207,41:249:99:565,0,2727 0/1:216,24:249:99:189,0,2605 0/1:217,23:250:99:192,0,2436 0/1:209,33:249:99:443,0,2769
641
+ 1 725587 . G A 32.98 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=7.085;DP=999;Dels=0.02;FS=2.388;HaplotypeScore=165.7905;MLEAC=2;MLEAF=0.250;MQ=25.81;MQ0=210;MQRankSum=-1.237;QD=0.07;ReadPosRankSum=1.806 GT:AD:DP:GQ:PL 0/1:223,24:247:22:22,0,2895 0/0:216,24:245:22:0,22,2231 0/0:229,16:245:44:0,44,2292 0/1:224,20:246:45:45,0,2397
642
+ 1 725591 . G A 341.97 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.108;DP=999;Dels=0.01;FS=8.067;HaplotypeScore=154.6432;MLEAC=3;MLEAF=0.375;MQ=25.45;MQ0=218;MQRankSum=-4.814;QD=0.46;ReadPosRankSum=5.964 GT:AD:DP:GQ:PL 0/1:209,39:249:18:18,0,3291 0/1:197,48:245:99:219,0,2219 0/0:210,32:247:99:0,123,2859 0/1:199,46:247:99:139,0,2709
643
+ 1 725600 . T A 536.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.064;DP=992;Dels=0.00;FS=3.094;HaplotypeScore=140.2967;MLEAC=4;MLEAF=0.500;MQ=25.19;MQ0=236;MQRankSum=0.967;QD=0.54;ReadPosRankSum=-0.632 GT:AD:DP:GQ:PL 0/1:200,31:249:99:189,0,2877 0/1:204,26:247:99:113,0,2265 0/1:196,29:242:99:162,0,2397 0/1:210,27:247:99:105,0,2633
644
+ 1 725606 . T C 91.49 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-6.372;DP=967;Dels=0.01;FS=12.262;HaplotypeScore=175.6321;MLEAC=2;MLEAF=0.250;MQ=25.48;MQ0=228;MQRankSum=-3.411;QD=0.19;ReadPosRankSum=1.915 GT:AD:DP:GQ:PL 0/0:201,34:247:73:0,73,3255 0/0:204,31:243:30:0,30,2603 0/1:176,34:224:6:6,0,2695 0/1:201,38:244:99:118,0,2850
645
+ 1 725611 . G A 163.96 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.624;DP=989;Dels=0.01;FS=4.438;HaplotypeScore=185.3910;MLEAC=3;MLEAF=0.375;MQ=25.07;MQ0=253;MQRankSum=2.845;QD=0.22;ReadPosRankSum=2.093 GT:AD:DP:GQ:PL 0/1:226,19:246:99:104,0,2985 0/1:230,18:248:19:19,0,2580 0/1:222,16:238:75:75,0,2726 0/0:235,12:248:49:0,49,3026
646
+ 1 725615 . C T 122.44 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=6.287;DP=989;Dels=0.01;FS=32.877;HaplotypeScore=193.3785;MLEAC=2;MLEAF=0.250;MQ=25.15;MQ0=251;MQRankSum=-1.324;QD=0.25;ReadPosRankSum=0.033 GT:AD:DP:GQ:PL 0/1:201,32:246:99:119,0,2585 0/0:224,19:248:1:0,1,2364 0/0:210,20:240:99:0,127,2811 0/1:221,22:246:35:35,0,2715
647
+ 1 725623 . A G 31.92 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=0.336;DP=999;Dels=0.00;FS=35.494;HaplotypeScore=210.7126;MLEAC=2;MLEAF=0.250;MQ=25.12;MQ0=253;MQRankSum=2.306;QD=0.06;ReadPosRankSum=-1.566 GT:AD:DP:GQ:PL 0/0:235,15:250:80:0,80,3488 0/0:238,11:249:99:0,133,2850 0/1:234,16:250:27:27,0,3059 0/1:231,18:249:39:39,0,3016
648
+ 1 725630 . T A 129.66 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.308;DP=965;Dels=0.03;FS=15.460;HaplotypeScore=160.7210;MLEAC=3;MLEAF=0.375;MQ=25.00;MQ0=251;MQRankSum=-2.293;QD=0.18;ReadPosRankSum=1.230 GT:AD:DP:GQ:PL 0/1:207,27:234:46:46,0,3207 0/1:205,24:229:99:112,0,2428 0/1:206,25:231:4:4,0,2816 0/0:220,26:246:13:0,13,3003
649
+ 1 725632 . A T 126.96 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-3.174;DP=946;Dels=0.03;FS=16.748;HaplotypeScore=167.4271;MLEAC=2;MLEAF=0.250;MQ=25.05;MQ0=244;MQRankSum=-2.638;QD=0.27;ReadPosRankSum=6.855 GT:AD:DP:GQ:PL 0/1:186,20:227:36:36,0,2847 0/0:179,25:220:59:0,59,2585 0/1:168,32:223:99:125,0,2340 0/0:203,30:247:19:0,19,2959
650
+ 1 725635 . T A 358.01 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.583;DP=961;Dels=0.00;FS=25.464;HaplotypeScore=190.2925;MLEAC=3;MLEAF=0.375;MQ=24.89;MQ0=244;MQRankSum=-0.920;QD=0.49;ReadPosRankSum=-1.286 GT:AD:DP:GQ:PL 0/1:193,42:241:99:320,0,2782 0/1:212,26:246:56:56,0,2734 0/0:209,13:228:99:0,131,3016 0/1:210,28:246:16:16,0,2983
651
+ 1 725642 . G T 130.03 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.760;DP=952;Dels=0.00;FS=37.450;HaplotypeScore=205.9782;MLEAC=2;MLEAF=0.250;MQ=25.43;MQ0=245;MQRankSum=2.202;QD=0.28;ReadPosRankSum=6.467 GT:AD:DP:GQ:PL 0/0:213,17:244:2:0,2,3005 0/0:222,9:243:99:0,141,2905 0/1:188,18:219:99:118,0,2477 0/1:217,19:246:44:44,0,2960
652
+ 1 725647 . C A 83.14 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-0.323;DP=950;Dels=0.00;FS=66.672;HaplotypeScore=139.2986;MLEAC=2;MLEAF=0.250;MQ=26.06;MQ0=246;MQRankSum=-6.092;QD=0.17;ReadPosRankSum=0.989 GT:AD:DP:GQ:PL 0/1:186,39:239:99:102,0,3030 0/1:187,44:247:15:15,0,2762 0/0:184,21:215:99:0,191,3068 0/0:202,43:249:99:0,106,3267
653
+ 1 725657 . T C 76.38 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-0.947;DP=918;Dels=0.00;FS=11.737;HaplotypeScore=99.0192;MLEAC=1;MLEAF=0.125;MQ=26.49;MQ0=244;MQRankSum=0.128;QD=0.32;ReadPosRankSum=0.278 GT:AD:DP:GQ:PL 0/0:216,10:233:99:0,118,3108 0/0:231,8:242:99:0,109,3023 0/0:190,10:207:17:0,17,2634 0/1:212,19:236:99:108,0,2923
654
+ 1 725667 . G T 281.96 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.507;DP=860;Dels=0.00;FS=1.431;HaplotypeScore=106.1032;MLEAC=4;MLEAF=0.500;MQ=27.34;MQ0=224;MQRankSum=1.086;QD=0.33;ReadPosRankSum=-0.073 GT:AD:DP:GQ:PL 0/1:200,20:220:99:181,0,2629 0/1:218,16:235:26:26,0,2824 0/1:169,14:185:84:84,0,2282 0/1:205,15:220:23:23,0,2978
655
+ 1 725669 . C T 192.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=3.841;DP=836;Dels=0.00;FS=24.105;HaplotypeScore=87.8459;MLEAC=2;MLEAF=0.250;MQ=27.44;MQ0=221;MQRankSum=-0.840;QD=0.49;ReadPosRankSum=-0.112 GT:AD:DP:GQ:PL 0/0:181,24:218:87:0,87,2922 0/0:185,17:227:99:0,125,2887 0/1:141,27:176:58:58,0,2134 0/1:172,29:214:99:169,0,2607
656
+ 1 725684 . C A 385.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.953;DP=431;Dels=0.03;FS=0.000;HaplotypeScore=54.5776;MLEAC=3;MLEAF=0.375;MQ=33.60;MQ0=93;MQRankSum=-8.132;QD=1.12;ReadPosRankSum=-5.139 GT:AD:DP:GQ:PL 0/1:75,18:93:99:123,0,1200 0/1:98,20:119:38:38,0,1796 0/0:70,15:85:99:0,110,1536 0/1:79,39:118:99:259,0,1718
657
+ 1 725686 . T G 88.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=4.989;DP=400;Dels=0.02;FS=0.000;HaplotypeScore=49.5494;MLEAC=2;MLEAF=0.250;MQ=34.74;MQ0=77;MQRankSum=-6.691;QD=0.43;ReadPosRankSum=-4.651 GT:AD:DP:GQ:PL 0/1:64,13:83:62:62,0,1283 0/0:92,12:111:50:0,50,1988 0/0:69,8:81:99:0,104,1468 0/1:82,23:116:61:61,0,1817
658
+ 1 725705 . G A 31.34 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-1.625;DP=279;Dels=0.00;FS=32.938;HaplotypeScore=19.1643;MLEAC=1;MLEAF=0.125;MQ=40.40;MQ0=45;MQRankSum=-3.618;QD=0.55;ReadPosRankSum=-1.433 GT:AD:DP:GQ:PL 0/1:42,9:57:63:63,0,919 0/0:70,4:79:99:0,102,1714 0/0:66,2:73:99:0,109,1493 0/0:61,6:70:99:0,110,1606
659
+ 1 725765 . T A 248.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.978;DP=536;Dels=0.01;FS=28.583;HaplotypeScore=44.9815;MLEAC=3;MLEAF=0.375;MQ=35.07;MQ0=94;MQRankSum=-4.627;QD=0.61;ReadPosRankSum=-2.651 GT:AD:DP:GQ:PL 0/1:118,16:134:36:36,0,1699 0/1:108,26:134:99:151,0,1878 0/0:101,21:124:33:0,33,1934 0/1:110,27:137:96:96,0,1996
660
+ 1 725777 . G C 120.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-2.384;DP=726;Dels=0.00;FS=26.112;HaplotypeScore=110.8354;MLEAC=1;MLEAF=0.125;MQ=33.21;MQ0=139;MQRankSum=-0.558;QD=0.64;ReadPosRankSum=0.549 GT:AD:DP:GQ:PL 0/0:146,12:175:93:0,93,2354 0/1:150,20:188:99:152,0,2159 0/0:142,7:168:81:0,81,2144 0/0:168,6:194:99:0,153,2620
661
+ 1 725784 . A T 30.36 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-2.007;DP=758;Dels=0.01;FS=56.426;HaplotypeScore=158.1739;MLEAC=1;MLEAF=0.125;MQ=33.35;MQ0=144;MQRankSum=-3.084;QD=0.17;ReadPosRankSum=2.684 GT:AD:DP:GQ:PL 0/0:159,16:177:99:0,147,2576 0/0:190,11:201:99:0,138,3170 0/1:155,18:173:62:62,0,2289 0/0:181,20:202:21:0,21,2877
662
+ 1 725785 . G T 186.61 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.972;DP=748;Dels=0.01;FS=10.761;HaplotypeScore=164.9744;MLEAC=2;MLEAF=0.250;MQ=33.62;MQ0=136;MQRankSum=-9.700;QD=0.32;ReadPosRankSum=-3.719 GT:AD:DP:GQ:PL 0/1:107,51:171:99:202,0,1791 0/1:122,56:199:99:134,0,2415 0/0:118,40:172:1:0,1,2238 0/1:146,39:201:16:16,0,2674
663
+ 1 725807 . C G 50.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-2.287;DP=985;Dels=0.00;FS=1.438;HaplotypeScore=121.5251;MLEAC=1;MLEAF=0.125;MQ=28.43;MQ0=225;MQRankSum=-2.053;QD=0.21;ReadPosRankSum=-2.431 GT:AD:DP:GQ:PL 0/0:221,14:248:99:0,160,3253 0/0:204,29:249:62:0,62,2593 0/1:199,25:241:82:82,0,2395 0/0:207,24:246:90:0,90,2879
664
+ 1 725810 . T G 49.33 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=2.932;DP=998;Dels=0.00;FS=29.585;HaplotypeScore=131.9978;MLEAC=1;MLEAF=0.125;MQ=28.13;MQ0=233;MQRankSum=1.246;QD=0.20;ReadPosRankSum=1.563 GT:AD:DP:GQ:PL 0/0:221,16:249:98:0,98,3100 0/1:218,19:249:81:81,0,2543 0/0:226,16:250:47:0,47,2732 0/0:223,12:249:99:0,115,3064
665
+ 1 725822 . G A 2376.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=11.052;DP=951;Dels=0.00;FS=30.006;HaplotypeScore=110.7683;MLEAC=4;MLEAF=0.500;MQ=28.68;MQ0=211;MQRankSum=-2.037;QD=2.50;ReadPosRankSum=3.837 GT:AD:DP:GQ:PL 0/1:171,56:235:99:607,0,2211 0/1:161,65:238:99:670,0,1685 0/1:166,71:240:99:754,0,1777 0/1:184,51:238:99:378,0,2102
666
+ 1 725841 . T G 458.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.173;DP=773;Dels=0.02;FS=1.876;HaplotypeScore=170.5990;MLEAC=3;MLEAF=0.375;MQ=33.31;MQ0=121;MQRankSum=-3.667;QD=0.80;ReadPosRankSum=5.561 GT:AD:DP:GQ:PL 0/1:154,27:181:99:109,0,2709 0/0:161,29:190:99:0,117,2727 0/1:146,35:181:99:234,0,2447 0/1:173,32:205:99:150,0,2696
667
+ 1 725855 . T A 415.42 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.602;DP=754;Dels=0.00;FS=21.180;HaplotypeScore=188.6320;MLEAC=3;MLEAF=0.375;MQ=35.96;MQ0=101;MQRankSum=-2.494;QD=0.74;ReadPosRankSum=0.404 GT:AD:DP:GQ:PL 0/0:173,21:196:11:0,11,3412 0/1:161,25:187:99:295,0,2590 0/1:156,17:174:50:50,0,2779 0/1:175,22:197:99:104,0,3064
668
+ 1 725861 . G T 2773.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.021;DP=744;Dels=0.00;FS=2.187;HaplotypeScore=103.8430;MLEAC=4;MLEAF=0.500;MQ=36.83;MQ0=95;MQRankSum=-5.576;QD=3.73;ReadPosRankSum=-6.650 GT:AD:DP:GQ:PL 0/1:124,67:192:99:888,0,2527 0/1:123,57:183:99:809,0,2181 0/1:132,37:171:99:417,0,2381 0/1:142,54:198:99:692,0,2565
669
+ 1 725872 . G A 59.35 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=6.460;DP=691;Dels=0.00;FS=40.014;HaplotypeScore=113.1679;MLEAC=1;MLEAF=0.125;MQ=39.32;MQ0=72;MQRankSum=-3.842;QD=0.34;ReadPosRankSum=2.126 GT:AD:DP:GQ:PL 0/1:153,21:175:89:89,0,2888 0/0:150,15:167:0:0,0,2647 0/0:140,8:150:99:0,164,2682 0/0:174,20:196:18:0,18,3289
670
+ 1 725879 . T A 962.96 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.804;DP=739;Dels=0.00;FS=14.515;HaplotypeScore=207.9247;MLEAC=4;MLEAF=0.500;MQ=39.90;MQ0=75;MQRankSum=-10.696;QD=1.30;ReadPosRankSum=-2.684 GT:AD:DP:GQ:PL 0/1:126,42:185:99:248,0,3003 0/1:140,39:187:22:22,0,3212 0/1:108,38:155:99:176,0,2408 0/1:149,54:211:99:549,0,3120
671
+ 1 725883 . A G 6443.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.916;DP=810;Dels=0.00;FS=5.347;HaplotypeScore=221.6868;MLEAC=4;MLEAF=0.500;MQ=38.73;MQ0=93;MQRankSum=-3.411;QD=7.96;ReadPosRankSum=5.609 GT:AD:DP:GQ:PL 0/1:110,98:208:99:2062,0,1782 0/1:119,86:205:99:1857,0,1698 0/1:117,55:172:99:1045,0,1889 0/1:134,91:225:99:1512,0,2639
672
+ 1 725886 . G A 1026.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.253;DP=893;Dels=0.00;FS=2.059;HaplotypeScore=223.8795;MLEAC=4;MLEAF=0.500;MQ=38.75;MQ0=95;MQRankSum=-3.423;QD=1.15;ReadPosRankSum=4.490 GT:AD:DP:GQ:PL 0/1:205,31:237:99:144,0,4278 0/1:185,31:216:99:149,0,3575 0/1:154,35:190:99:375,0,2967 0/1:211,39:250:99:391,0,4172
673
+ 1 725889 . A G 325.92 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.443;DP=903;Dels=0.00;FS=2.832;HaplotypeScore=217.0350;MLEAC=2;MLEAF=0.250;MQ=39.03;MQ0=88;MQRankSum=-4.448;QD=0.72;ReadPosRankSum=3.820 GT:AD:DP:GQ:PL 0/1:204,33:239:99:133,0,4402 0/1:190,24:214:99:227,0,3615 0/0:183,14:197:74:0,74,3711 0/0:227,23:250:24:0,24,4626
674
+ 1 725894 . A G 5256.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=2.260;DP=941;Dels=0.00;FS=6.206;HaplotypeScore=219.4077;MLEAC=4;MLEAF=0.500;MQ=38.20;MQ0=92;MQRankSum=-2.872;QD=5.59;ReadPosRankSum=5.911 GT:AD:DP:GQ:PL 0/1:160,88:248:99:1692,0,2902 0/1:161,72:233:99:1409,0,2705 0/1:163,47:210:99:886,0,2844 0/1:172,77:250:99:1302,0,3304
675
+ 1 725903 . T A 10656.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.641;DP=945;Dels=0.04;FS=12.428;HaplotypeScore=242.2666;MLEAC=4;MLEAF=0.500;MQ=37.15;MQ0=96;MQRankSum=-15.561;QD=11.28;ReadPosRankSum=-1.275 GT:AD:DP:GQ:PL 0/1:61,169:231:99:3080,0,894 0/1:77,149:229:99:2323,0,1378 0/1:70,137:212:99:2390,0,1386 0/1:69,167:237:99:2896,0,1288
676
+ 1 725905 . T A 149.69 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.479;DP=979;Dels=0.03;FS=0.000;HaplotypeScore=175.2614;MLEAC=3;MLEAF=0.375;MQ=34.40;MQ0=127;MQRankSum=-5.950;QD=0.20;ReadPosRankSum=0.502 GT:AD:DP:GQ:PL 0/1:210,31:241:7:7,0,4015 0/0:203,23:227:99:0,226,3626 0/1:200,37:237:99:141,0,3795 0/1:210,34:244:35:35,0,4073
677
+ 1 725937 . G C 786.96 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=3.679;DP=994;Dels=0.01;FS=0.789;HaplotypeScore=248.1717;MLEAC=4;MLEAF=0.500;MQ=26.11;MQ0=277;MQRankSum=0.319;QD=0.79;ReadPosRankSum=2.743 GT:AD:DP:GQ:PL 0/1:207,30:247:99:305,0,2250 0/1:201,30:247:99:286,0,1737 0/1:208,25:246:99:204,0,2275 0/1:202,29:246:24:24,0,2252
678
+ 1 725944 . C A 3448.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.666;DP=968;Dels=0.02;FS=5.923;HaplotypeScore=208.0441;MLEAC=4;MLEAF=0.500;MQ=26.51;MQ0=264;MQRankSum=-2.605;QD=3.56;ReadPosRankSum=3.101 GT:AD:DP:GQ:PL 0/1:143,76:238:99:869,0,1482 0/1:133,82:242:99:813,0,1234 0/1:141,76:236:99:911,0,1593 0/1:127,92:236:99:888,0,1357
679
+ 1 725946 . G A 55.82 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.136;DP=985;Dels=0.01;FS=74.304;HaplotypeScore=210.5399;MLEAC=2;MLEAF=0.250;MQ=26.46;MQ0=261;MQRankSum=0.554;QD=0.11;ReadPosRankSum=-2.747 GT:AD:DP:GQ:PL 0/1:200,16:242:83:83,0,2517 0/0:209,11:247:99:0,167,2508 0/0:203,16:241:96:0,96,2724 0/1:205,11:246:5:5,0,2244
680
+ 1 725947 . C G 95.42 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.319;DP=998;Dels=0.01;FS=1.987;HaplotypeScore=207.0876;MLEAC=3;MLEAF=0.375;MQ=26.69;MQ0=266;MQRankSum=-2.496;QD=0.13;ReadPosRankSum=2.485 GT:AD:DP:GQ:PL 0/1:211,28:247:9:9,0,2799 0/1:219,20:248:63:63,0,2123 0/1:212,27:245:57:57,0,2676 0/0:217,20:247:99:0,118,2693
681
+ 1 725952 . G C 45.96 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=4.045;DP=993;Dels=0.00;FS=45.193;HaplotypeScore=187.9693;MLEAC=2;MLEAF=0.250;MQ=26.58;MQ0=248;MQRankSum=1.962;QD=0.09;ReadPosRankSum=-0.265 GT:AD:DP:GQ:PL 0/1:229,15:248:59:59,0,2776 0/0:234,7:244:99:0,160,2511 0/0:234,14:250:99:0,108,2809 0/1:237,10:249:21:21,0,2456
682
+ 1 725962 . A G 494.45 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-5.443;DP=855;Dels=0.00;FS=7.188;HaplotypeScore=120.6639;MLEAC=4;MLEAF=0.500;MQ=28.65;MQ0=170;MQRankSum=-4.576;QD=0.58;ReadPosRankSum=0.028 GT:AD:DP:GQ:PL 0/1:167,41:219:99:198,0,2618 0/1:167,38:212:7:7,0,2079 0/1:152,46:206:99:128,0,2188 0/1:167,38:218:99:193,0,2103
683
+ 1 725977 . G T 161.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.352;DP=671;Dels=0.01;FS=1.373;HaplotypeScore=152.7010;MLEAC=3;MLEAF=0.375;MQ=31.44;MQ0=107;MQRankSum=-2.578;QD=0.33;ReadPosRankSum=3.847 GT:AD:DP:GQ:PL 0/1:141,16:160:51:51,0,2109 0/1:125,21:151:28:28,0,1847 0/1:147,23:174:99:117,0,2214 0/0:147,30:179:49:0,49,2303
684
+ 1 725980 . C T 3854.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.293;DP=592;Dels=0.04;FS=0.717;HaplotypeScore=152.9680;MLEAC=4;MLEAF=0.500;MQ=32.98;MQ0=84;MQRankSum=-12.024;QD=6.51;ReadPosRankSum=2.709 GT:AD:DP:GQ:PL 0/1:50,78:129:99:993,0,897 0/1:45,85:132:99:861,0,875 0/1:51,93:150:99:879,0,1122 0/1:46,113:159:99:1154,0,942
685
+ 1 725987 . G A 387.93 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=5.364;DP=656;Dels=0.00;FS=0.000;HaplotypeScore=178.4872;MLEAC=3;MLEAF=0.375;MQ=32.19;MQ0=98;MQRankSum=-1.387;QD=0.76;ReadPosRankSum=1.177 GT:AD:DP:GQ:PL 0/0:132,15:148:24:0,24,2150 0/1:134,24:158:99:209,0,1686 0/1:145,23:169:76:76,0,2059 0/1:155,26:181:99:137,0,2090
686
+ 1 725994 . A G 225.91 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.087;DP=690;Dels=0.00;FS=9.454;HaplotypeScore=118.1401;MLEAC=2;MLEAF=0.250;MQ=31.99;MQ0=111;MQRankSum=-1.169;QD=0.63;ReadPosRankSum=0.846 GT:AD:DP:GQ:PL 0/0:149,7:156:99:0,148,2656 0/1:147,21:168:99:224,0,1850 0/0:163,12:176:80:0,80,2511 0/1:172,17:190:36:36,0,2322
687
+ 1 725996 . T G 151.92 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.772;DP=684;Dels=0.00;FS=0.000;HaplotypeScore=99.4945;MLEAC=3;MLEAF=0.375;MQ=32.17;MQ0=107;MQRankSum=-3.530;QD=0.29;ReadPosRankSum=-5.780 GT:AD:DP:GQ:PL 0/1:113,25:158:99:124,0,1982 0/0:138,18:164:31:0,31,1981 0/1:141,22:174:32:32,0,2235 0/1:151,29:188:30:30,0,2204
688
+ 1 726009 . C T 141 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.548;DP=672;Dels=0.01;FS=4.143;HaplotypeScore=101.9743;MLEAC=2;MLEAF=0.250;MQ=33.88;MQ0=93;MQRankSum=-2.361;QD=0.40;ReadPosRankSum=6.461 GT:AD:DP:GQ:PL 0/0:135,7:152:99:0,120,2444 0/1:134,19:162:99:156,0,2050 0/0:141,11:163:72:0,72,2413 0/1:166,17:186:19:19,0,2404
689
+ 1 726010 . C T 731.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.643;DP=657;Dels=0.01;FS=13.749;HaplotypeScore=100.3025;MLEAC=4;MLEAF=0.500;MQ=34.19;MQ0=90;MQRankSum=-3.971;QD=1.11;ReadPosRankSum=-3.636 GT:AD:DP:GQ:PL 0/1:108,35:152:99:272,0,1886 0/1:116,32:154:99:187,0,1980 0/1:126,28:161:99:187,0,2148 0/1:145,28:181:99:118,0,2213
690
+ 1 726016 . G A 87.94 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.243;DP=739;Dels=0.00;FS=11.366;HaplotypeScore=108.1977;MLEAC=2;MLEAF=0.250;MQ=33.28;MQ0=107;MQRankSum=-1.366;QD=0.25;ReadPosRankSum=-3.653 GT:AD:DP:GQ:PL 0/1:147,19:166:37:37,0,2401 0/1:166,18:184:85:85,0,2385 0/0:171,6:177:99:0,170,2865 0/0:194,16:211:21:0,21,2849
691
+ 1 726029 . C A 731.90 HARD_TO_VALIDATE AC=3;AF=0.375;AN=8;BaseQRankSum=-1.205;DP=604;Dels=0.01;FS=3.219;HaplotypeScore=114.2410;MLEAC=3;MLEAF=0.375;MQ=36.09;MQ0=64;MQRankSum=-6.772;QD=1.61;ReadPosRankSum=2.771 GT:AD:DP:GQ:PL 0/0:121,23:147:63:0,63,2316 0/1:110,37:151:99:386,0,2061 0/1:105,24:132:75:75,0,2204 0/1:129,36:166:99:305,0,2189
692
+ 1 726031 . G T 194.88 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.881;DP=608;Dels=0.01;FS=8.867;HaplotypeScore=117.0005;MLEAC=3;MLEAF=0.375;MQ=36.27;MQ0=64;MQRankSum=-3.188;QD=0.41;ReadPosRankSum=3.189 GT:AD:DP:GQ:PL 0/1:122,20:146:99:130,0,2208 0/1:127,18:150:92:92,0,2290 0/0:119,7:129:99:0,113,2539 0/1:153,18:176:6:6,0,2703
693
+ 1 726064 . A G 216.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-4.032;DP=807;Dels=0.00;FS=52.530;HaplotypeScore=82.4313;MLEAC=2;MLEAF=0.250;MQ=33.21;MQ0=157;MQRankSum=-1.592;QD=0.53;ReadPosRankSum=-0.983 GT:AD:DP:GQ:PL 0/0:195,14:210:43:0,43,3013 0/1:178,19:199:99:185,0,2386 0/0:167,13:184:57:0,57,2974 0/1:186,25:214:66:66,0,3149
694
+ 1 726066 . G A 405.90 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=4.817;DP=812;Dels=0.00;FS=13.692;HaplotypeScore=74.5183;MLEAC=3;MLEAF=0.375;MQ=33.40;MQ0=155;MQRankSum=-2.185;QD=0.65;ReadPosRankSum=3.902 GT:AD:DP:GQ:PL 0/1:187,25:212:99:168,0,2799 0/1:177,23:201:99:143,0,2503 0/0:168,17:185:99:0,110,3103 0/1:190,23:214:99:129,0,3063
695
+ 1 726082 . G C 242.37 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.903;DP=663;Dels=0.00;FS=56.198;HaplotypeScore=36.3378;MLEAC=3;MLEAF=0.375;MQ=36.29;MQ0=102;MQRankSum=-3.667;QD=0.47;ReadPosRankSum=4.571 GT:AD:DP:GQ:PL 0/1:164,17:181:4:4,0,2872 0/1:142,18:160:99:170,0,2218 0/0:132,14:147:28:0,28,2737 0/1:146,29:175:99:101,0,2874
696
+ 1 726099 . A T 56.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=0.837;DP=640;Dels=0.03;FS=9.441;HaplotypeScore=88.9434;MLEAC=1;MLEAF=0.125;MQ=38.07;MQ0=70;MQRankSum=-2.927;QD=0.34;ReadPosRankSum=-0.536 GT:AD:DP:GQ:PL 0/0:143,16:159:46:0,46,2838 0/1:142,18:160:88:88,0,2440 0/0:126,11:137:41:0,41,2753 0/0:149,12:162:34:0,34,2905
697
+ 1 726100 . A G 76.45 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=0.351;DP=636;Dels=0.03;FS=10.857;HaplotypeScore=101.7480;MLEAC=1;MLEAF=0.125;MQ=37.95;MQ0=70;MQRankSum=-2.891;QD=0.47;ReadPosRankSum=-0.602 GT:AD:DP:GQ:PL 0/0:139,18:157:14:0,14,2739 0/1:141,18:159:99:108,0,2424 0/0:130,10:140:57:0,57,2858 0/0:148,12:160:21:0,21,2768
698
+ 1 726107 . T G 3233.06 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-3.289;DP=590;Dels=0.01;FS=63.325;HaplotypeScore=117.7532;MLEAC=4;MLEAF=0.500;MQ=38.68;MQ0=69;MQRankSum=-9.445;QD=5.48;ReadPosRankSum=3.198 GT:AD:DP:GQ:PL 0/1:86,61:153:99:691,0,1863 0/1:91,57:151:99:895,0,1536 0/1:81,45:129:99:763,0,1807 0/1:83,64:149:99:917,0,1706
699
+ 1 726110 . A T 162.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.310;DP=624;Dels=0.01;FS=4.076;HaplotypeScore=102.9881;MLEAC=2;MLEAF=0.250;MQ=37.73;MQ0=85;MQRankSum=-4.020;QD=0.54;ReadPosRankSum=2.463 GT:AD:DP:GQ:PL 0/1:138,18:158:75:75,0,2532 0/0:152,14:166:52:0,52,2603 0/1:119,17:137:99:122,0,2462 0/0:140,15:155:62:0,62,2609
700
+ 1 726113 . C G 2176.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.135;DP=645;Dels=0.01;FS=30.015;HaplotypeScore=98.9326;MLEAC=4;MLEAF=0.500;MQ=37.09;MQ0=102;MQRankSum=-8.321;QD=3.38;ReadPosRankSum=1.219 GT:AD:DP:GQ:PL 0/1:120,44:165:99:358,0,2333 0/1:108,60:171:99:749,0,1771 0/1:93,45:138:99:519,0,1899 0/1:108,54:163:99:583,0,1937
701
+ 1 726145 . C T 756.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.087;DP=950;Dels=0.00;FS=0.692;HaplotypeScore=111.5165;MLEAC=4;MLEAF=0.500;MQ=30.78;MQ0=180;MQRankSum=-7.851;QD=0.80;ReadPosRankSum=-9.110 GT:AD:DP:GQ:PL 0/1:180,52:235:99:291,0,2884 0/1:163,71:237:89:89,0,2368 0/1:195,40:237:66:66,0,2966 0/1:174,61:239:99:343,0,2479
702
+ 1 726156 . T A 888.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-2.092;DP=967;Dels=0.01;FS=0.398;HaplotypeScore=147.1781;MLEAC=4;MLEAF=0.500;MQ=30.79;MQ0=165;MQRankSum=3.323;QD=0.92;ReadPosRankSum=8.872 GT:AD:DP:GQ:PL 0/1:210,29:239:99:300,0,3156 0/1:215,23:239:99:137,0,2601 0/1:215,25:240:99:183,0,2866 0/1:209,30:239:99:301,0,2540
703
+ 1 726159 . C A 105.35 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-2.116;DP=936;Dels=0.01;FS=7.924;HaplotypeScore=144.5960;MLEAC=1;MLEAF=0.125;MQ=30.86;MQ0=154;MQRankSum=-4.992;QD=0.44;ReadPosRankSum=2.739 GT:AD:DP:GQ:PL 0/0:196,34:230:60:0,60,3544 0/1:197,35:235:99:137,0,2487 0/0:195,35:231:22:0,22,3002 0/0:197,30:229:99:0,156,3113
704
+ 1 726173 . G A 322.35 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-1.204;DP=935;Dels=0.00;FS=0.544;HaplotypeScore=131.7537;MLEAC=2;MLEAF=0.250;MQ=30.22;MQ0=134;MQRankSum=3.256;QD=0.70;ReadPosRankSum=6.943 GT:AD:DP:GQ:PL 0/1:199,23:222:99:109,0,3363 0/0:215,19:241:10:0,10,2810 0/0:213,18:236:21:0,21,3297 0/1:205,27:236:99:247,0,2855
705
+ 1 726178 . A G 270.92 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-4.917;DP=957;Dels=0.04;FS=3.302;HaplotypeScore=211.6951;MLEAC=2;MLEAF=0.250;MQ=30.46;MQ0=136;MQRankSum=-7.712;QD=0.56;ReadPosRankSum=9.060 GT:AD:DP:GQ:PL 0/0:181,41:226:34:0,34,3771 0/1:173,52:232:97:97,0,2538 0/0:179,42:226:26:0,26,3331 0/1:167,55:229:99:208,0,3027
706
+ 1 726183 . C A 971.45 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.774;DP=941;Dels=0.00;FS=4.634;HaplotypeScore=200.3178;MLEAC=4;MLEAF=0.500;MQ=30.12;MQ0=135;MQRankSum=1.222;QD=1.03;ReadPosRankSum=-4.574 GT:AD:DP:GQ:PL 0/1:180,40:235:99:378,0,3290 0/1:185,29:239:7:7,0,2309 0/1:182,32:233:99:146,0,3074 0/1:165,40:232:99:472,0,2564
707
+ 1 726185 . T A 5407.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.369;DP=949;Dels=0.01;FS=0.850;HaplotypeScore=190.0846;MLEAC=4;MLEAF=0.500;MQ=29.90;MQ0=141;MQRankSum=-13.059;QD=5.70;ReadPosRankSum=10.908 GT:AD:DP:GQ:PL 0/1:108,129:237:99:1276,0,2332 0/1:90,145:241:99:1138,0,1452 0/1:99,133:233:99:1179,0,2123 0/1:76,147:227:99:1847,0,1489
708
+ 1 726203 . G T 99.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=6.357;DP=981;Dels=0.00;FS=5.796;HaplotypeScore=120.1611;MLEAC=2;MLEAF=0.250;MQ=27.06;MQ0=169;MQRankSum=0.102;QD=0.20;ReadPosRankSum=4.404 GT:AD:DP:GQ:PL 0/1:211,22:249:64:64,0,3321 0/0:208,17:245:89:0,89,2541 0/1:216,18:248:70:70,0,2599 0/0:212,8:239:99:0,128,3099
709
+ 1 726205 . A T 154.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.882;DP=983;Dels=0.00;FS=3.934;HaplotypeScore=119.6273;MLEAC=2;MLEAF=0.250;MQ=26.73;MQ0=176;MQRankSum=-0.001;QD=0.31;ReadPosRankSum=4.938 GT:AD:DP:GQ:PL 0/1:210,21:250:95:95,0,3406 0/0:201,16:243:71:0,71,2507 0/1:216,19:250:94:94,0,2741 0/0:206,10:239:87:0,87,3088
710
+ 1 726220 . C T 121.90 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-2.737;DP=816;Dels=0.02;FS=31.232;HaplotypeScore=124.0530;MLEAC=2;MLEAF=0.250;MQ=27.08;MQ0=176;MQRankSum=-2.192;QD=0.30;ReadPosRankSum=4.140 GT:AD:DP:GQ:PL 0/1:172,22:204:75:75,0,2750 0/0:169,24:201:99:0,103,2529 0/0:169,21:193:42:0,42,2305 0/1:172,18:199:81:81,0,2331
711
+ 1 726235 . G T 184.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.216;DP=482;Dels=0.00;FS=2.428;HaplotypeScore=63.0348;MLEAC=3;MLEAF=0.375;MQ=30.97;MQ0=91;MQRankSum=-4.845;QD=0.50;ReadPosRankSum=1.672 GT:AD:DP:GQ:PL 0/1:98,14:121:30:30,0,1749 0/1:100,24:132:98:98,0,1744 0/0:93,17:115:61:0,61,1766 0/1:85,18:112:91:91,0,1594
712
+ 1 726248 . A G 519.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-8.216;DP=372;Dels=0.00;FS=16.356;HaplotypeScore=33.5390;MLEAC=4;MLEAF=0.500;MQ=33.83;MQ0=50;MQRankSum=-10.339;QD=1.40;ReadPosRankSum=1.577 GT:AD:DP:GQ:PL 0/1:52,30:95:99:163,0,1415 0/1:59,25:99:99:130,0,1565 0/1:45,29:89:62:62,0,1261 0/1:47,31:89:99:197,0,1175
713
+ 1 726481 . T G 5934.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.648;DP=219;Dels=0.00;FS=5.366;HaplotypeScore=1.7519;MLEAC=8;MLEAF=1.00;MQ=50.09;MQ0=20;MQRankSum=6.148;QD=27.10;ReadPosRankSum=4.828 GT:AD:DP:GQ:PL 1/1:10,55:65:99:1666,103,0 1/1:9,53:62:99:1706,124,0 1/1:2,47:49:99:1600,138,0 1/1:12,31:43:61:988,61,0
714
+ 1 726564 . T C 205.88 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-8.278;DP=529;Dels=0.00;FS=0.000;HaplotypeScore=24.6222;MLEAC=3;MLEAF=0.375;MQ=34.23;MQ0=121;MQRankSum=-6.545;QD=0.51;ReadPosRankSum=-7.182 GT:AD:DP:GQ:PL 0/1:102,27:129:99:169,0,1554 0/1:105,28:133:64:64,0,1369 0/0:105,23:128:39:0,39,1992 0/1:102,36:138:6:6,0,1412
715
+ 1 726601 . A G 632.73 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.227;DP=851;Dels=0.03;FS=1.276;HaplotypeScore=124.9361;MLEAC=4;MLEAF=0.500;MQ=22.45;MQ0=313;MQRankSum=-6.946;QD=0.74;ReadPosRankSum=-4.122 GT:AD:DP:GQ:PL 0/1:140,62:210:99:251,0,1369 0/1:149,45:202:5:5,0,1421 0/1:143,64:213:99:221,0,1431 0/1:122,65:198:99:187,0,1117
716
+ 1 726728 . T A 121.89 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.838;DP=849;Dels=0.00;FS=7.147;HaplotypeScore=32.0945;MLEAC=3;MLEAF=0.375;MQ=29.60;MQ0=346;MQRankSum=-0.132;QD=0.19;ReadPosRankSum=-5.724 GT:AD:DP:GQ:PL 0/1:187,15:203:34:34,0,1684 0/1:214,15:230:50:50,0,1904 0/1:185,23:208:71:71,0,2014 0/0:194,11:208:8:0,8,1771
717
+ 1 726733 . T C 181.68 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.428;DP=821;Dels=0.00;FS=8.692;HaplotypeScore=30.8261;MLEAC=3;MLEAF=0.375;MQ=29.66;MQ0=341;MQRankSum=0.039;QD=0.30;ReadPosRankSum=-5.248 GT:AD:DP:GQ:PL 0/1:184,9:194:82:82,0,1561 0/1:207,11:220:53:53,0,1836 0/1:183,13:199:79:79,0,1890 0/0:197,9:207:5:0,5,1707
718
+ 1 726739 . G C 184.69 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-5.326;DP=720;Dels=0.00;FS=8.604;HaplotypeScore=29.8014;MLEAC=4;MLEAF=0.500;MQ=31.72;MQ0=272;MQRankSum=-0.954;QD=0.26;ReadPosRankSum=-3.460 GT:AD:DP:GQ:PL 0/1:154,12:167:78:78,0,1615 0/1:180,12:194:57:57,0,1830 0/1:158,13:172:79:79,0,1928 0/1:176,11:187:1:1,0,1685
719
+ 1 726764 . G T 305.05 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=0.424;DP=294;Dels=0.00;FS=0.678;HaplotypeScore=15.1044;MLEAC=4;MLEAF=0.500;MQ=50.39;MQ0=25;MQRankSum=-7.299;QD=1.04;ReadPosRankSum=8.255 GT:AD:DP:GQ:PL 0/1:57,9:66:99:107,0,1433 0/1:69,11:80:93:93,0,1612 0/1:68,14:82:99:123,0,1642 0/1:59,7:66:14:14,0,1451
720
+ 1 726767 . T A 335.99 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=1.810;DP=266;Dels=0.00;FS=0.000;HaplotypeScore=7.9346;MLEAC=4;MLEAF=0.500;MQ=52.28;MQ0=13;MQRankSum=-9.040;QD=1.26;ReadPosRankSum=8.610 GT:AD:DP:GQ:PL 0/1:42,9:56:99:119,0,1283 0/1:58,13:79:89:89,0,1597 0/1:53,13:71:99:142,0,1453 0/1:47,8:60:18:18,0,1323
721
+ 1 726922 . C A 1664.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.552;DP=902;Dels=0.00;FS=17.669;HaplotypeScore=111.1723;MLEAC=4;MLEAF=0.500;MQ=19.33;MQ0=251;MQRankSum=-0.385;QD=1.85;ReadPosRankSum=-3.402 GT:AD:DP:GQ:PL 0/1:138,84:231:99:470,0,941 0/1:115,77:201:99:319,0,1084 0/1:152,82:245:99:547,0,1306 0/1:147,59:223:99:361,0,1240
722
+ 1 726924 . T G 710.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-0.417;DP=921;Dels=0.00;FS=0.000;HaplotypeScore=117.1164;MLEAC=4;MLEAF=0.500;MQ=19.48;MQ0=269;MQRankSum=0.891;QD=0.77;ReadPosRankSum=-3.380 GT:AD:DP:GQ:PL 0/1:149,44:232:99:208,0,1231 0/1:144,34:200:99:128,0,1153 0/1:145,52:248:99:321,0,1318 0/1:159,43:237:86:86,0,1387
723
+ 1 726942 . A C 35.33 HARD_TO_VALIDATE;LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-0.596;DP=960;Dels=0.00;FS=1.024;HaplotypeScore=97.3420;MLEAC=1;MLEAF=0.125;MQ=18.51;MQ0=321;MQRankSum=-0.104;QD=0.14;ReadPosRankSum=1.252 GT:AD:DP:GQ:PL 0/0:209,19:241:67:0,67,1548 0/0:202,14:221:43:0,43,1446 0/0:218,22:249:76:0,76,1759 0/1:211,19:249:67:67,0,1283
724
+ 1 726944 . C G 1253.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=11.747;DP=968;Dels=0.00;FS=4.048;HaplotypeScore=97.7848;MLEAC=4;MLEAF=0.500;MQ=17.93;MQ0=329;MQRankSum=-1.461;QD=1.30;ReadPosRankSum=5.717 GT:AD:DP:GQ:PL 0/1:145,71:241:99:492,0,443 0/1:161,44:230:99:367,0,569 0/1:174,56:248:99:278,0,870 0/1:174,57:249:99:149,0,890
725
+ 1 727004 . C A 115.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=6.917;DP=928;Dels=0.00;FS=8.253;HaplotypeScore=97.7309;MLEAC=1;MLEAF=0.125;MQ=23.46;MQ0=346;MQRankSum=3.090;QD=0.51;ReadPosRankSum=-2.804 GT:AD:DP:GQ:PL 0/0:213,5:236:99:0,141,1851 0/1:207,13:228:99:147,0,1409 0/0:207,10:236:35:0,35,1401 0/0:198,8:227:73:0,73,1295
726
+ 1 727018 . A T 43.93 HARD_TO_VALIDATE;LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-2.437;DP=768;Dels=0.01;FS=5.600;HaplotypeScore=51.8242;MLEAC=2;MLEAF=0.250;MQ=27.48;MQ0=253;MQRankSum=-3.527;QD=0.11;ReadPosRankSum=3.092 GT:AD:DP:GQ:PL 0/1:172,22:198:24:24,0,1843 0/0:170,24:197:99:0,178,2176 0/1:159,23:182:54:54,0,1799 0/0:155,24:185:99:0,135,1756
727
+ 1 727024 . G A 78.33 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=3.007;DP=678;Dels=0.00;FS=12.696;HaplotypeScore=47.0993;MLEAC=1;MLEAF=0.125;MQ=29.06;MQ0=214;MQRankSum=2.377;QD=0.47;ReadPosRankSum=4.690 GT:AD:DP:GQ:PL 0/0:181,3:184:99:0,142,2088 0/1:151,11:166:99:110,0,1635 0/0:160,6:168:69:0,69,1923 0/0:156,3:160:99:0,99,1525
728
+ 1 727030 . A G 105.34 HARD_TO_VALIDATE;LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-1.831;DP=431;Dels=0.00;FS=18.155;HaplotypeScore=22.3123;MLEAC=1;MLEAF=0.125;MQ=35.60;MQ0=103;MQRankSum=-2.602;QD=0.96;ReadPosRankSum=4.512 GT:AD:DP:GQ:PL 0/0:101,9:112:50:0,50,1608 0/1:94,14:110:99:137,0,1377 0/0:93,10:103:47:0,47,1680 0/0:92,12:106:30:0,30,1299
729
+ 1 728159 . C T 2177.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=108;Dels=0.00;FS=0.000;HaplotypeScore=0.2493;MLEAC=8;MLEAF=1.00;MQ=26.81;MQ0=24;QD=20.16 GT:AD:DP:GQ:PL 1/1:0,28:28:48:506,48,0 1/1:0,28:28:57:596,57,0 1/1:0,21:21:39:431,39,0 1/1:0,30:30:63:670,63,0
730
+ 1 728242 . C G 2871.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=127;Dels=0.00;FS=0.000;HaplotypeScore=0.1663;MLEAC=8;MLEAF=1.00;MQ=27.81;MQ0=21;QD=22.61 GT:AD:DP:GQ:PL 1/1:0,28:28:54:560,54,0 1/1:0,27:27:63:645,63,0 1/1:0,37:37:75:830,75,0 1/1:0,35:35:84:862,84,0
731
+ 1 729679 . C G 4789.35 PASS AC=8;AF=1.00;AN=8;DP=153;Dels=0.00;FS=0.000;HaplotypeScore=0.9931;MLEAC=8;MLEAF=1.00;MQ=47.73;MQ0=0;QD=31.30 GT:AD:DP:GQ:PL 1/1:1,37:38:99:1125,99,0 1/1:0,40:40:99:1306,117,0 1/1:0,34:34:99:1111,102,0 1/1:0,41:41:99:1273,114,0
732
+ 1 730825 . C T 1678.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.903;DP=126;Dels=0.00;FS=2.276;HaplotypeScore=0.6022;MLEAC=4;MLEAF=0.500;MQ=38.06;MQ0=1;MQRankSum=0.032;QD=13.32;ReadPosRankSum=1.422 GT:AD:DP:GQ:PL 0/1:13,13:26:99:265,0,329 0/1:9,18:27:99:522,0,224 0/1:19,15:34:99:390,0,528 0/1:19,20:39:99:534,0,485
733
+ 1 733998 . C T 373.08 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=35;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=18.62;MQ0=14;QD=12.44 GT:AD:DP:GQ:PL ./. 1/1:0,14:14:18:181,18,0 1/1:0,2:2:3:30,3,0 1/1:0,14:14:18:187,18,0
734
+ 1 734042 . G A 1374.38 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=62;Dels=0.00;FS=0.000;HaplotypeScore=0.6972;MLEAC=8;MLEAF=1.00;MQ=32.70;MQ0=12;QD=22.17 GT:AD:DP:GQ:PL 1/1:0,10:10:18:208,18,0 1/1:0,18:18:33:363,33,0 1/1:0,12:12:24:271,24,0 1/1:0,22:22:51:558,51,0
735
+ 1 734462 . G A 1095.37 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=47;Dels=0.00;FS=0.000;HaplotypeScore=0.5887;MLEAC=8;MLEAF=1.00;MQ=31.45;MQ0=11;QD=23.31 GT:AD:DP:GQ:PL 1/1:1,13:14:24:262,24,0 1/1:2,10:12:27:302,27,0 1/1:0,13:13:30:322,30,0 1/1:0,8:8:21:235,21,0
736
+ 1 734491 . T C 466.20 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.576;DP=36;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=21.13;MQ0=14;MQRankSum=1.103;QD=12.95;ReadPosRankSum=1.103 GT:AD:DP:GQ:PL 1/1:1,9:10:3:23,3,0 1/1:0,11:11:18:182,18,0 1/1:0,11:11:21:220,21,0 1/1:0,4:4:6:66,6,0
737
+ 1 735426 . G A 1164.39 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=74;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=21.77;MQ0=29;QD=15.74 GT:AD:DP:GQ:PL 1/1:0,11:11:15:158,15,0 1/1:0,22:22:30:316,30,0 1/1:0,23:23:36:373,36,0 1/1:0,18:18:33:343,33,0
738
+ 1 735682 . G C 1529.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.619;DP=118;Dels=0.00;FS=3.471;HaplotypeScore=0.8922;MLEAC=4;MLEAF=0.500;MQ=37.22;MQ0=2;MQRankSum=1.299;QD=12.97;ReadPosRankSum=0.362 GT:AD:DP:GQ:PL 0/1:10,11:21:99:284,0,170 0/1:14,21:35:99:526,0,336 0/1:21,18:40:99:481,0,490 0/1:10,12:22:99:271,0,244
739
+ 1 736522 . A T 1091.40 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=54;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=28.36;MQ0=16;QD=20.21 GT:AD:DP:GQ:PL 1/1:0,20:20:39:445,39,0 1/1:0,6:6:15:174,15,0 1/1:0,13:13:24:267,24,0 1/1:0,14:15:21:231,21,0
740
+ 1 736523 . T C 1194.38 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=56;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=28.50;MQ0=16;QD=21.33 GT:AD:DP:GQ:PL 1/1:0,20:20:39:450,39,0 1/1:0,7:7:18:202,18,0 1/1:0,13:13:24:273,24,0 1/1:0,16:16:27:295,27,0
741
+ 1 737740 . G A 507.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.702;DP=198;Dels=0.00;FS=0.000;HaplotypeScore=0.3325;MLEAC=4;MLEAF=0.500;MQ=22.67;MQ0=74;MQRankSum=-2.568;QD=2.57;ReadPosRankSum=0.443 GT:AD:DP:GQ:PL 0/1:38,9:47:46:46,0,506 0/1:37,13:50:99:218,0,558 0/1:30,15:45:76:76,0,484 0/1:41,15:56:99:200,0,537
742
+ 1 739210 . A G 2682.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=0.771;DP=116;Dels=0.00;FS=0.000;HaplotypeScore=0.2892;MLEAC=8;MLEAF=1.00;MQ=35.15;MQ0=16;MQRankSum=4.759;QD=23.12;ReadPosRankSum=1.014 GT:AD:DP:GQ:PL 1/1:6,24:30:54:625,54,0 1/1:6,21:27:51:561,51,0 1/1:3,33:36:84:931,84,0 1/1:2,21:23:54:591,54,0
743
+ 1 739426 . A G 2224.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=1.686;DP=101;Dels=0.00;FS=0.000;HaplotypeScore=1.7862;MLEAC=8;MLEAF=1.00;MQ=30.94;MQ0=25;MQRankSum=-1.732;QD=22.02;ReadPosRankSum=-0.069 GT:AD:DP:GQ:PL 1/1:0,21:22:45:520,45,0 1/1:0,27:27:60:652,60,0 1/1:0,27:27:51:574,51,0 1/1:1,23:25:45:504,45,0
744
+ 1 739528 . G A 2236.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=87;Dels=0.00;FS=0.000;HaplotypeScore=1.6248;MLEAC=8;MLEAF=1.00;MQ=33.99;MQ0=11;QD=25.71 GT:AD:DP:GQ:PL 1/1:0,15:15:33:365,33,0 1/1:0,22:23:54:606,54,0 1/1:0,19:19:42:460,42,0 1/1:0,30:30:75:831,75,0
745
+ 1 741579 . T C 1364.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=80;Dels=0.00;FS=0.000;HaplotypeScore=1.1951;MLEAC=8;MLEAF=1.00;MQ=22.64;MQ0=22;QD=17.05 GT:AD:DP:GQ:PL 1/1:0,21:22:39:398,39,0 1/1:0,17:17:24:224,24,0 1/1:0,15:15:36:366,36,0 1/1:0,25:26:42:402,42,0
746
+ 1 743021 . T C 651.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.995;DP=146;Dels=0.00;FS=1.824;HaplotypeScore=0.7067;MLEAC=4;MLEAF=0.500;MQ=20.76;MQ0=64;MQRankSum=-3.163;QD=4.47;ReadPosRankSum=0.565 GT:AD:DP:GQ:PL 0/1:25,11:36:99:146,0,306 0/1:22,10:32:58:58,0,347 0/1:21,16:37:99:213,0,242 0/1:23,18:41:99:267,0,226
747
+ 1 743072 . C A 3367.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=152;Dels=0.00;FS=0.000;HaplotypeScore=0.6606;MLEAC=8;MLEAF=1.00;MQ=27.04;MQ0=37;QD=22.15 GT:AD:DP:GQ:PL 1/1:8,28:36:63:672,63,0 1/1:5,37:42:99:1032,99,0 1/1:3,26:29:66:655,66,0 1/1:3,42:45:99:1034,102,0
748
+ 1 744304 . C T 1453.12 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=2.262;DP=167;Dels=0.00;FS=48.875;HaplotypeScore=0.3898;MLEAC=5;MLEAF=0.625;MQ=16.69;MQ0=81;MQRankSum=0.945;QD=8.70;ReadPosRankSum=-0.201 GT:AD:DP:GQ:PL 0/1:11,27:38:56:411,0,56 1/1:18,23:41:15:384,15,0 0/1:18,16:34:92:273,0,92 0/1:27,27:54:99:419,0,147
749
+ 1 745123 . A C 154.91 HARD_TO_VALIDATE AC=2;AF=0.250;AN=8;BaseQRankSum=-0.776;DP=174;Dels=0.00;FS=17.918;HaplotypeScore=2.2102;MLEAC=2;MLEAF=0.250;MQ=30.03;MQ0=58;MQRankSum=-0.107;QD=2.04;ReadPosRankSum=-0.633 GT:AD:DP:GQ:PL 0/0:57,3:60:96:0,96,1092 0/1:31,7:38:99:126,0,566 0/1:30,8:38:63:63,0,548 0/0:32,4:36:26:0,26,662
750
+ 1 745347 . T C 284.10 PASS AC=2;AF=0.250;AN=8;BaseQRankSum=-0.055;DP=159;Dels=0.00;FS=1.908;HaplotypeScore=1.6568;MLEAC=2;MLEAF=0.250;MQ=33.71;MQ0=6;MQRankSum=-0.919;QD=3.74;ReadPosRankSum=-4.901 GT:AD:DP:GQ:PL 0/0:43,3:47:73:0,73,1251 0/1:29,14:43:99:276,0,673 0/0:32,4:36:5:0,5,865 0/1:28,5:33:41:41,0,799
751
+ 1 746368 . C A 64.12 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.598;DP=156;Dels=0.00;FS=4.107;HaplotypeScore=2.3610;MLEAC=3;MLEAF=0.375;MQ=33.22;MQ0=6;MQRankSum=-6.074;QD=0.59;ReadPosRankSum=1.218 GT:AD:DP:GQ:PL 0/1:24,7:32:63:63,0,621 0/0:39,8:47:9:0,9,1119 0/1:27,6:33:31:31,0,716 0/1:37,7:44:1:1,0,1021
752
+ 1 748878 . G T 3183.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=149;Dels=0.00;FS=0.000;HaplotypeScore=0.4461;MLEAC=8;MLEAF=1.00;MQ=24.97;MQ0=30;QD=21.36 GT:AD:DP:GQ:PL 1/1:3,33:36:72:750,72,0 1/1:5,38:43:87:877,87,0 1/1:4,34:38:87:890,87,0 1/1:2,29:31:69:692,69,0
753
+ 1 749265 . G A 564.68 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=96;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=11.37;MQ0=76;QD=5.88 GT:AD:DP:GQ:PL 1/1:11,8:19:6:59,6,0 1/1:15,14:29:15:150,15,0 1/1:9,17:26:18:174,18,0 1/1:10,12:22:21:207,21,0
754
+ 1 749517 . C T 71.45 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=0.203;DP=93;Dels=0.00;FS=0.000;HaplotypeScore=0.1446;MLEAC=2;MLEAF=0.250;MQ=12.82;MQ0=62;MQRankSum=-0.880;QD=1.32;ReadPosRankSum=0.519 GT:AD:DP:GQ:PL 0/0:19,2:21:12:0,12,124 0/1:18,8:26:70:70,0,101 0/0:16,2:18:12:0,12,111 0/1:23,5:28:35:35,0,158
755
+ 1 749592 . G A 152.18 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=44;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=9.81;MQ0=33;QD=3.46 GT:AD:DP:GQ:PL 1/1:0,13:13:6:61,6,0 1/1:0,8:8:3:32,3,0 1/1:0,9:9:6:57,6,0 1/1:0,14:14:3:26,3,0
756
+ 1 749644 . T C 73.52 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.058;DP=49;Dels=0.00;FS=0.000;HaplotypeScore=0.1663;MLEAC=4;MLEAF=0.500;MQ=12.19;MQ0=34;MQRankSum=-0.289;QD=1.93;ReadPosRankSum=0.521 GT:AD:DP:GQ:PL 0/1:10,5:15:21:52,0,21 1/1:5,3:8:3:32,3,0 0/0:4,7:11:3:0,3,32 0/1:9,6:15:21:21,0,46
757
+ 1 749683 . C G 65 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=27;Dels=0.00;FS=0.000;HaplotypeScore=1.4989;MLEAC=4;MLEAF=1.00;MQ=12.08;MQ0=19;QD=3.42 GT:AD:DP:GQ:PL 1/1:1,9:10:3:30,3,0 ./. ./. 1/1:1,8:9:6:59,6,0
758
+ 1 749720 . A G 56.09 HARD_TO_VALIDATE AC=4;AF=0.667;AN=6;BaseQRankSum=0.000;DP=21;Dels=0.00;FS=0.000;HaplotypeScore=0.1928;MLEAC=5;MLEAF=0.833;MQ=16.04;MQ0=14;MQRankSum=-0.720;QD=4.01;ReadPosRankSum=0.720 GT:AD:DP:GQ:PL 1/1:6,4:10:6:53,6,0 1/1:2,2:4:3:32,3,0 0/0:3,1:4:3:0,3,26 ./.
759
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760
+ 1 749989 . C T 480.08 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=24;Dels=0.00;FS=0.000;HaplotypeScore=0.2367;MLEAC=8;MLEAF=1.00;MQ=29.01;MQ0=7;QD=20.00 GT:AD:DP:GQ:PL 1/1:1,6:7:9:102,9,0 1/1:0,8:8:18:189,18,0 1/1:0,3:3:3:36,3,0 1/1:0,6:6:15:178,15,0
761
+ 1 749997 . A G 357.27 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=22;Dels=0.00;FS=0.000;HaplotypeScore=0.2367;MLEAC=8;MLEAF=1.00;MQ=28.58;MQ0=7;QD=16.24 GT:AD:DP:GQ:PL 1/1:1,6:7:9:98,9,0 1/1:0,7:7:12:137,12,0 1/1:0,3:3:3:38,3,0 1/1:0,5:5:9:109,9,0
762
+ 1 750013 . C T 63 HARD_TO_VALIDATE AC=4;AF=1.00;AN=4;DP=10;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=4;MLEAF=1.00;MQ=16.63;MQ0=5;QD=12.60 GT:AD:DP:GQ:PL ./. 1/1:0,4:4:6:53,6,0 1/1:0,1:1:3:34,3,0 ./.
763
+ 1 750342 . C T 54.80 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=26;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=10.80;MQ0=20;QD=3.04 GT:AD:DP:GQ:PL 1/1:1,6:8:3:24,3,0 ./. 1/1:0,6:6:3:24,3,0 1/1:0,4:4:3:30,3,0
764
+ 1 752566 . G A 4818.35 PASS AC=8;AF=1.00;AN=8;DP=144;Dels=0.00;FS=0.000;HaplotypeScore=0.2290;MLEAC=8;MLEAF=1.00;MQ=57.23;MQ0=0;QD=33.46 GT:AD:DP:GQ:PL 1/1:0,34:34:99:1138,99,0 1/1:0,43:43:99:1453,129,0 1/1:0,32:32:93:1070,93,0 1/1:0,35:35:99:1183,105,0
765
+ 1 752721 . A G 5412.35 PASS AC=8;AF=1.00;AN=8;DP=160;Dels=0.00;FS=0.000;HaplotypeScore=1.1213;MLEAC=8;MLEAF=1.00;MQ=59.94;MQ0=0;QD=33.83 GT:AD:DP:GQ:PL 1/1:0,42:42:99:1448,123,0 1/1:0,45:45:99:1531,135,0 1/1:0,32:32:93:1084,93,0 1/1:0,41:41:99:1375,120,0
766
+ 1 752894 . T C 1966.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=140;Dels=0.00;FS=0.000;HaplotypeScore=0.8434;MLEAC=8;MLEAF=1.00;MQ=30.61;MQ0=54;QD=14.05 GT:AD:DP:GQ:PL 1/1:12,25:37:63:583,63,0 1/1:9,23:32:51:459,51,0 1/1:5,23:28:45:414,45,0 1/1:8,35:43:60:536,60,0
767
+ 1 753269 . C G 1769.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=94;Dels=0.00;FS=0.000;HaplotypeScore=0.1663;MLEAC=8;MLEAF=1.00;MQ=28.65;MQ0=36;QD=18.82 GT:AD:DP:GQ:PL 1/1:0,14:14:24:266,24,0 1/1:0,19:19:30:341,30,0 1/1:0,28:28:45:508,45,0 1/1:0,33:33:60:680,60,0
768
+ 1 753405 . C A 2157.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=103;Dels=0.00;FS=0.000;HaplotypeScore=2.2218;MLEAC=8;MLEAF=1.00;MQ=33.63;MQ0=14;QD=20.95 GT:AD:DP:GQ:PL 1/1:0,23:23:36:405,36,0 1/1:0,27:28:57:621,57,0 1/1:0,25:25:45:484,45,0 1/1:0,27:27:63:673,63,0
769
+ 1 753425 . T C 1990.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=101;Dels=0.00;FS=0.000;HaplotypeScore=1.3760;MLEAC=8;MLEAF=1.00;MQ=31.17;MQ0=22;QD=19.71 GT:AD:DP:GQ:PL 1/1:0,20:20:27:317,27,0 1/1:0,27:27:51:580,51,0 1/1:0,28:28:42:471,42,0 1/1:0,26:26:60:648,60,0
770
+ 1 753474 . C G 2167.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=81;Dels=0.00;FS=0.000;HaplotypeScore=0.6912;MLEAC=8;MLEAF=1.00;MQ=37.21;MQ0=9;QD=26.76 GT:AD:DP:GQ:PL 1/1:0,16:16:39:445,39,0 1/1:0,21:21:51:554,51,0 1/1:0,22:23:54:604,54,0 1/1:0,21:21:51:590,51,0
771
+ 1 753849 . G T 644.50 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=45;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=18.77;MQ0=5;QD=14.32 GT:AD:DP:GQ:PL 1/1:0,13:13:24:217,24,0 1/1:0,9:9:12:109,12,0 1/1:0,11:11:12:103,12,0 1/1:0,12:12:27:241,27,0
772
+ 1 754182 . A G 2932.35 PASS AC=8;AF=1.00;AN=8;DP=100;Dels=0.00;FS=0.000;HaplotypeScore=0.2497;MLEAC=8;MLEAF=1.00;MQ=54.60;MQ0=0;QD=29.32 GT:AD:DP:GQ:PL 1/1:0,24:24:69:747,69,0 1/1:0,27:27:75:763,75,0 1/1:0,21:21:57:574,57,0 1/1:0,28:28:84:874,84,0
773
+ 1 754192 . A G 2909.35 PASS AC=8;AF=1.00;AN=8;DP=98;Dels=0.00;FS=0.000;HaplotypeScore=0.2497;MLEAC=8;MLEAF=1.00;MQ=53.94;MQ0=0;QD=29.69 GT:AD:DP:GQ:PL 1/1:0,21:21:63:662,63,0 1/1:0,26:26:75:763,75,0 1/1:0,23:23:63:631,63,0 1/1:0,28:28:81:879,81,0
774
+ 1 754334 . T C 4581.35 PASS AC=8;AF=1.00;AN=8;DP=156;Dels=0.00;FS=0.000;HaplotypeScore=2.1762;MLEAC=8;MLEAF=1.00;MQ=52.11;MQ0=0;QD=29.37 GT:AD:DP:GQ:PL 1/1:0,35:36:99:1034,99,0 1/1:0,46:46:99:1325,129,0 1/1:0,34:34:99:1058,102,0 1/1:0,40:40:99:1190,120,0
775
+ 1 754503 . G A 4580.35 PASS AC=8;AF=1.00;AN=8;DP=138;Dels=0.00;FS=0.000;HaplotypeScore=0.1835;MLEAC=8;MLEAF=1.00;MQ=58.95;MQ0=0;QD=33.19 GT:AD:DP:GQ:PL 1/1:0,31:31:90:1049,90,0 1/1:0,35:35:99:1159,102,0 1/1:0,35:35:99:1213,105,0 1/1:0,36:37:99:1185,105,0
776
+ 1 754964 . C T 4652.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=-1.054;DP=143;Dels=0.00;FS=0.000;HaplotypeScore=1.8187;MLEAC=8;MLEAF=1.00;MQ=41.23;MQ0=0;MQRankSum=1.490;QD=32.53;ReadPosRankSum=-0.884 GT:AD:DP:GQ:PL 1/1:1,44:45:95:1373,95,0 1/1:0,32:32:96:1073,96,0 1/1:0,25:25:75:833,75,0 1/1:0,41:41:99:1399,123,0
777
+ 1 755775 . A G 3165.34 PASS AC=7;AF=0.875;AN=8;BaseQRankSum=-0.487;DP=174;Dels=0.00;FS=1.116;HaplotypeScore=4.8562;MLEAC=7;MLEAF=0.875;MQ=59.23;MQ0=0;MQRankSum=2.104;QD=18.19;ReadPosRankSum=0.897 GT:AD:DP:GQ:PL 0/1:5,24:33:36:529,0,36 1/1:4,54:58:99:1148,99,0 1/1:2,43:45:36:843,36,0 1/1:2,34:38:46:677,46,0
778
+ 1 755887 . C G 5711.35 PASS AC=8;AF=1.00;AN=8;DP=178;Dels=0.00;FS=0.000;HaplotypeScore=3.2938;MLEAC=8;MLEAF=1.00;MQ=52.19;MQ0=0;QD=32.09 GT:AD:DP:GQ:PL 1/1:0,60:60:99:1908,165,0 1/1:0,33:33:96:1085,96,0 1/1:0,43:44:99:1370,120,0 1/1:0,41:41:99:1374,123,0
779
+ 1 755890 . A T 5678.35 PASS AC=8;AF=1.00;AN=8;DP=173;Dels=0.00;FS=0.000;HaplotypeScore=5.5446;MLEAC=8;MLEAF=1.00;MQ=52.05;MQ0=0;QD=32.82 GT:AD:DP:GQ:PL 1/1:0,57:57:99:1856,159,0 1/1:0,32:32:90:1044,90,0 1/1:0,44:44:99:1426,126,0 1/1:0,40:40:99:1378,120,0
780
+ 1 755940 . C T 4126.38 PASS AC=5;AF=0.625;AN=8;BaseQRankSum=3.369;DP=232;Dels=0.00;FS=0.000;HaplotypeScore=25.1682;MLEAC=5;MLEAF=0.625;MQ=48.33;MQ0=5;MQRankSum=8.523;QD=17.79;ReadPosRankSum=-3.312 GT:AD:DP:GQ:PL 0/1:15,39:55:4:1034,0,4 0/1:19,38:57:51:1009,0,51 0/1:23,35:58:99:895,0,229 1/1:14,48:62:25:1221,25,0
781
+ 1 756011 . A C 44.33 LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-2.421;DP=209;Dels=0.00;FS=26.240;HaplotypeScore=3.4770;MLEAC=1;MLEAF=0.125;MQ=56.98;MQ0=1;MQRankSum=-1.601;QD=0.66;ReadPosRankSum=-3.306 GT:AD:DP:GQ:PL 0/0:49,4:54:78:0,78,1442 0/1:47,19:67:76:76,0,1136 0/0:41,6:47:72:0,72,1238 0/0:34,6:41:44:0,44,972
782
+ 1 756040 . G A 50.58 LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=0.566;DP=243;Dels=0.00;FS=49.551;HaplotypeScore=6.5087;MLEAC=1;MLEAF=0.125;MQ=55.20;MQ0=1;MQRankSum=-8.273;QD=0.78;ReadPosRankSum=-1.272 GT:AD:DP:GQ:PL 0/1:55,9:65:82:82,0,1321 0/0:63,8:72:10:0,10,1615 0/0:50,9:59:29:0,29,1411 0/0:43,4:47:29:0,29,1166
783
+ 1 756042 . G C 145.04 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-0.674;DP=241;Dels=0.00;FS=21.696;HaplotypeScore=6.1258;MLEAC=3;MLEAF=0.375;MQ=55.15;MQ0=1;MQRankSum=-7.535;QD=0.79;ReadPosRankSum=-1.510 GT:AD:DP:GQ:PL 0/1:51,14:65:99:128,0,1154 0/1:58,13:71:14:14,0,1345 0/0:45,13:58:8:0,8,1217 0/1:38,9:47:36:36,0,917
784
+ 1 756063 . A C 338.94 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.270;DP=260;Dels=0.00;FS=4.121;HaplotypeScore=16.9840;MLEAC=4;MLEAF=0.500;MQ=54.20;MQ0=4;MQRankSum=-6.688;QD=1.30;ReadPosRankSum=2.906 GT:AD:DP:GQ:PL 0/1:54,21:75:99:109,0,1405 0/1:49,22:72:99:127,0,1291 0/1:41,16:57:39:39,0,1183 0/1:37,19:56:96:96,0,922
785
+ 1 756250 . G A 117.52 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=1.590;DP=219;Dels=0.00;FS=0.000;HaplotypeScore=8.4198;MLEAC=3;MLEAF=0.375;MQ=52.95;MQ0=2;MQRankSum=-6.950;QD=0.71;ReadPosRankSum=-4.042 GT:AD:DP:GQ:PL 0/1:49,7:56:34:34,0,1235 0/1:61,7:68:1:1,0,1641 0/1:34,8:42:99:114,0,818 0/0:46,7:53:19:0,19,1175
786
+ 1 756257 . A C 253.08 PASS AC=3;AF=0.375;AN=8;BaseQRankSum=-1.318;DP=216;Dels=0.00;FS=0.000;HaplotypeScore=10.5557;MLEAC=3;MLEAF=0.375;MQ=51.83;MQ0=2;MQRankSum=-6.174;QD=1.58;ReadPosRankSum=-1.020 GT:AD:DP:GQ:PL 0/1:40,16:56:99:128,0,990 0/1:53,9:62:37:37,0,1314 0/1:32,9:42:99:122,0,767 0/0:46,9:56:16:0,16,1212
787
+ 1 756259 . G A 255.93 PASS AC=3;AF=0.375;AN=8;BaseQRankSum=-0.432;DP=217;Dels=0.00;FS=1.445;HaplotypeScore=13.6878;MLEAC=4;MLEAF=0.500;MQ=51.51;MQ0=2;MQRankSum=-4.892;QD=1.58;ReadPosRankSum=-2.826 GT:AD:DP:GQ:PL 0/1:47,8:55:62:62,0,1262 0/1:53,10:63:64:64,0,1344 0/1:34,10:44:99:161,0,857 0/0:47,8:55:2:0,2,1108
788
+ 1 756267 . T G 45.64 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-7.485;DP=314;Dels=0.00;FS=8.064;HaplotypeScore=33.8445;MLEAC=2;MLEAF=0.250;MQ=51.30;MQ0=5;MQRankSum=-6.915;QD=0.32;ReadPosRankSum=0.812 GT:AD:DP:GQ:PL 0/0:75,10:85:21:0,21,2011 0/0:77,8:85:80:0,80,2133 0/1:56,8:64:10:10,0,1351 0/1:69,11:80:69:69,0,1610
789
+ 1 756268 . G A 4618.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.444;DP=313;Dels=0.00;FS=28.118;HaplotypeScore=31.3386;MLEAC=4;MLEAF=0.500;MQ=51.09;MQ0=5;MQRankSum=-2.270;QD=14.76;ReadPosRankSum=9.250 GT:AD:DP:GQ:PL 0/1:30,55:85:99:1329,0,591 0/1:29,52:86:99:1285,0,489 0/1:24,39:65:99:815,0,457 0/1:20,52:77:99:1222,0,333
790
+ 1 756277 . G T 2219.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=0.021;DP=415;Dels=0.00;FS=0.000;HaplotypeScore=45.0358;MLEAC=4;MLEAF=0.500;MQ=47.66;MQ0=11;MQRankSum=-10.049;QD=5.35;ReadPosRankSum=-6.449 GT:AD:DP:GQ:PL 0/1:88,33:122:99:661,0,2086 0/1:78,30:109:99:483,0,1963 0/1:51,26:78:99:448,0,1242 0/1:63,38:105:99:660,0,1422
791
+ 1 756334 . C T 3001.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.927;DP=339;Dels=0.00;FS=12.334;HaplotypeScore=5.7595;MLEAC=4;MLEAF=0.500;MQ=48.41;MQ0=2;MQRankSum=-11.613;QD=8.86;ReadPosRankSum=4.964 GT:AD:DP:GQ:PL 0/1:66,36:104:99:758,0,1645 0/1:50,41:91:99:955,0,1201 0/1:36,25:61:99:575,0,995 0/1:49,34:83:99:746,0,1272
792
+ 1 756347 . C G 252.94 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-3.502;DP=245;Dels=0.00;FS=0.000;HaplotypeScore=5.5267;MLEAC=4;MLEAF=0.500;MQ=51.74;MQ0=0;MQRankSum=-8.261;QD=1.03;ReadPosRankSum=4.227 GT:AD:DP:GQ:PL 0/1:69,13:82:38:38,0,2003 0/1:47,15:62:99:127,0,1206 0/1:39,8:47:46:46,0,1175 0/1:45,9:54:74:74,0,1226
793
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794
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795
+ 1 756352 . C T 153.12 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-4.116;DP=245;Dels=0.00;FS=2.716;HaplotypeScore=6.0658;MLEAC=3;MLEAF=0.375;MQ=50.71;MQ0=0;MQRankSum=-6.976;QD=0.83;ReadPosRankSum=3.559 GT:AD:DP:GQ:PL 0/1:71,11:82:13:13,0,2123 0/1:45,12:57:99:103,0,1238 0/1:39,7:46:71:71,0,1127 0/0:54,6:60:38:0,38,1540
796
+ 1 756361 . C A 147.45 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-3.440;DP=254;Dels=0.00;FS=0.000;HaplotypeScore=3.9341;MLEAC=4;MLEAF=0.500;MQ=50.63;MQ0=1;MQRankSum=-7.325;QD=0.75;ReadPosRankSum=0.663 GT:AD:DP:GQ:PL 0/1:76,12:88:9:9,0,2181 0/1:50,13:63:99:99,0,1334 0/1:39,7:46:69:69,0,1128 0/0:49,7:56:0:0,0,1411
797
+ 1 756364 . G A 159.91 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.041;DP=254;Dels=0.00;FS=0.000;HaplotypeScore=4.6359;MLEAC=3;MLEAF=0.375;MQ=50.72;MQ0=1;MQRankSum=-7.493;QD=0.81;ReadPosRankSum=-0.375 GT:AD:DP:GQ:PL 0/1:76,13:89:33:33,0,2255 0/1:50,13:63:97:97,0,1268 0/1:39,7:46:64:64,0,1159 0/0:49,6:56:35:0,35,1496
798
+ 1 756373 . A G 67.95 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.392;DP=249;Dels=0.00;FS=0.000;HaplotypeScore=15.2694;MLEAC=3;MLEAF=0.375;MQ=50.42;MQ0=1;MQRankSum=-7.102;QD=0.34;ReadPosRankSum=-3.513 GT:AD:DP:GQ:PL 0/1:64,11:78:28:28,0,1893 0/1:57,12:70:64:64,0,1371 0/1:44,6:50:8:8,0,1144 0/0:44,5:51:6:0,6,1175
799
+ 1 756378 . G C 296.95 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.929;DP=245;Dels=0.00;FS=0.000;HaplotypeScore=18.4817;MLEAC=4;MLEAF=0.500;MQ=50.49;MQ0=1;MQRankSum=-8.765;QD=1.21;ReadPosRankSum=-4.465 GT:AD:DP:GQ:PL 0/1:60,12:72:31:31,0,1632 0/1:50,20:70:99:174,0,1174 0/1:40,10:50:74:74,0,1100 0/1:41,12:53:50:50,0,824
800
+ 1 756380 . T A 5312.95 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.796;DP=244;Dels=0.00;FS=1.268;HaplotypeScore=23.1633;MLEAC=4;MLEAF=0.500;MQ=50.49;MQ0=1;MQRankSum=9.413;QD=21.77;ReadPosRankSum=4.182 GT:AD:DP:GQ:PL 0/1:12,59:71:39:1758,0,39 0/1:20,51:72:99:1309,0,149 0/1:9,41:50:74:1189,0,74 0/1:7,43:50:29:1089,0,29
801
+ 1 756430 . A C 51.90 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-3.951;DP=234;Dels=0.00;FS=33.754;HaplotypeScore=12.0221;MLEAC=2;MLEAF=0.250;MQ=53.54;MQ0=1;MQRankSum=-5.236;QD=0.44;ReadPosRankSum=0.264 GT:AD:DP:GQ:PL 0/0:56,10:66:77:0,77,1703 0/1:47,16:63:40:40,0,1152 0/0:41,8:49:48:0,48,1121 0/1:43,12:56:46:46,0,1083
802
+ 1 756604 . A G 5476.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=2.034;DP=210;Dels=0.00;FS=0.000;HaplotypeScore=3.4679;MLEAC=8;MLEAF=1.00;MQ=59.29;MQ0=0;MQRankSum=1.785;QD=26.08;ReadPosRankSum=1.192 GT:AD:DP:GQ:PL 1/1:2,75:79:99:2052,183,0 1/1:0,44:44:99:1222,120,0 1/1:0,39:39:99:1078,105,0 1/1:0,47:48:99:1150,114,0
803
+ 1 757640 . G A 6146.35 PASS AC=8;AF=1.00;AN=8;DP=198;Dels=0.00;FS=0.000;HaplotypeScore=3.7112;MLEAC=8;MLEAF=1.00;MQ=59.88;MQ0=0;QD=31.04 GT:AD:DP:GQ:PL 1/1:0,54:59:99:1698,150,0 1/1:0,54:55:99:1713,156,0 1/1:0,35:35:99:1158,102,0 1/1:0,49:49:99:1603,144,0
804
+ 1 757734 . C T 5932.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=2.141;DP=194;Dels=0.00;FS=6.239;HaplotypeScore=3.0101;MLEAC=8;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=-1.331;QD=30.58;ReadPosRankSum=-0.019 GT:AD:DP:GQ:PL 1/1:5,55:60:99:1665,111,0 1/1:0,52:52:99:1667,150,0 1/1:0,42:42:99:1354,123,0 1/1:0,40:40:99:1272,114,0
805
+ 1 757842 . G C 940.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-3.564;DP=132;Dels=0.00;FS=14.006;HaplotypeScore=8.1450;MLEAC=4;MLEAF=0.500;MQ=53.41;MQ0=3;MQRankSum=0.038;QD=7.13;ReadPosRankSum=-1.846 GT:AD:DP:GQ:PL 0/1:18,13:32:99:235,0,472 0/1:24,12:36:99:206,0,645 0/1:18,13:31:99:265,0,535 0/1:18,15:33:99:267,0,371
806
+ 1 757843 . C A 1361.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.856;DP=133;Dels=0.00;FS=13.310;HaplotypeScore=8.3939;MLEAC=4;MLEAF=0.500;MQ=53.35;MQ0=3;MQRankSum=0.352;QD=10.24;ReadPosRankSum=1.134 GT:AD:DP:GQ:PL 0/1:19,13:32:99:305,0,358 0/1:17,20:37:99:416,0,256 0/1:17,15:32:99:403,0,352 0/1:19,13:32:99:270,0,399
807
+ 1 757869 . T C 199.01 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=2.735;DP=138;Dels=0.00;FS=0.000;HaplotypeScore=5.5208;MLEAC=4;MLEAF=0.500;MQ=54.23;MQ0=3;MQRankSum=-4.241;QD=1.44;ReadPosRankSum=-4.684 GT:AD:DP:GQ:PL 0/1:33,4:37:54:54,0,815 0/1:30,7:37:81:81,0,763 0/1:27,6:33:80:80,0,649 0/1:25,6:31:16:16,0,525
808
+ 1 757936 . C A 5912.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=2.451;DP=201;Dels=0.00;FS=0.000;HaplotypeScore=4.6945;MLEAC=8;MLEAF=1.00;MQ=59.88;MQ0=0;MQRankSum=0.166;QD=29.41;ReadPosRankSum=0.711 GT:AD:DP:GQ:PL 1/1:3,56:59:99:1591,113,0 1/1:1,51:52:99:1554,141,0 1/1:0,41:42:99:1280,114,0 1/1:1,46:47:99:1513,135,0
809
+ 1 758093 . T C 66.33 LowQD AC=1;AF=0.125;AN=8;BaseQRankSum=-6.274;DP=234;Dels=0.00;FS=1.210;HaplotypeScore=3.0517;MLEAC=1;MLEAF=0.125;MQ=59.25;MQ0=0;MQRankSum=-2.696;QD=0.98;ReadPosRankSum=-2.008 GT:AD:DP:GQ:PL 0/1:49,19:68:98:98,0,1399 0/0:61,7:68:99:0,126,1552 0/0:47,2:49:99:0,129,1454 0/0:44,5:49:93:0,93,1212
810
+ 1 758144 . A G 6668.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=0.805;DP=209;Dels=0.00;FS=0.000;HaplotypeScore=4.5709;MLEAC=8;MLEAF=1.00;MQ=59.01;MQ0=0;MQRankSum=3.814;QD=31.91;ReadPosRankSum=-0.296 GT:AD:DP:GQ:PL 1/1:4,56:60:99:1801,112,0 1/1:1,61:62:99:1959,177,0 1/1:0,45:45:99:1503,135,0 1/1:0,42:42:99:1431,126,0
811
+ 1 758324 . T C 6445.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.698;DP=201;Dels=0.00;FS=0.000;HaplotypeScore=2.2503;MLEAC=8;MLEAF=1.00;MQ=59.38;MQ0=0;MQRankSum=1.370;QD=32.07;ReadPosRankSum=0.698 GT:AD:DP:GQ:PL 1/1:0,62:62:99:2029,180,0 1/1:0,47:47:99:1494,138,0 1/1:0,43:43:99:1406,126,0 1/1:1,48:49:99:1542,141,0
812
+ 1 758626 . C T 6270.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=2.324;DP=200;Dels=0.00;FS=0.000;HaplotypeScore=7.9293;MLEAC=8;MLEAF=1.00;MQ=58.49;MQ0=1;MQRankSum=1.735;QD=31.35;ReadPosRankSum=-1.660 GT:AD:DP:GQ:PL 1/1:0,63:64:99:2009,177,0 1/1:0,54:54:99:1717,153,0 1/1:2,38:40:99:1277,114,0 1/1:1,41:42:99:1293,114,0
813
+ 1 759700 . T C 883.42 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=47;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=26.16;MQ0=12;QD=18.80 GT:AD:DP:GQ:PL 1/1:0,12:12:30:335,30,0 1/1:0,13:13:15:149,15,0 1/1:0,10:10:18:195,18,0 1/1:0,12:12:21:230,21,0
814
+ 1 759837 . T A 2367.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=88;Dels=0.00;FS=0.000;HaplotypeScore=1.4446;MLEAC=8;MLEAF=1.00;MQ=40.36;MQ0=11;QD=26.90 GT:AD:DP:GQ:PL 1/1:0,16:16:39:428,39,0 1/1:0,30:30:72:779,72,0 1/1:0,19:19:51:578,51,0 1/1:0,23:23:57:608,57,0
815
+ 1 760912 . C T 5179.35 PASS AC=8;AF=1.00;AN=8;DP=157;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=51.44;MQ0=0;QD=32.99 GT:AD:DP:GQ:PL 1/1:0,33:33:87:1003,87,0 1/1:0,36:36:99:1210,105,0 1/1:0,46:46:99:1587,138,0 1/1:0,42:42:99:1405,123,0
816
+ 1 761147 . T C 5791.35 PASS AC=8;AF=1.00;AN=8;DP=169;Dels=0.00;FS=0.000;HaplotypeScore=0.8662;MLEAC=8;MLEAF=1.00;MQ=57.58;MQ0=0;QD=34.27 GT:AD:DP:GQ:PL 1/1:0,33:33:99:1149,99,0 1/1:0,47:47:99:1620,141,0 1/1:0,42:42:99:1427,126,0 1/1:0,47:47:99:1621,141,0
817
+ 1 761732 . C T 1995.35 PASS AC=8;AF=1.00;AN=8;DP=70;Dels=0.00;FS=0.000;HaplotypeScore=0.5973;MLEAC=8;MLEAF=1.00;MQ=40.71;MQ0=3;QD=28.51 GT:AD:DP:GQ:PL 1/1:0,18:18:39:431,39,0 1/1:0,15:15:42:462,42,0 1/1:0,14:14:42:481,42,0 1/1:0,23:23:57:647,57,0
818
+ 1 761752 . C T 1261.36 PASS AC=8;AF=1.00;AN=8;DP=50;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=34.90;MQ0=5;QD=25.23 GT:AD:DP:GQ:PL 1/1:0,16:16:27:291,27,0 1/1:0,11:11:30:323,30,0 1/1:0,10:10:30:333,30,0 1/1:0,13:13:30:340,30,0
819
+ 1 761800 . A T 630.55 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=33;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=21.77;MQ0=7;QD=19.11 GT:AD:DP:GQ:PL 1/1:0,8:8:15:158,15,0 1/1:0,9:9:21:221,21,0 1/1:0,5:5:9:89,9,0 1/1:0,11:11:18:188,18,0
820
+ 1 761811 . G A 954.46 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=43;Dels=0.00;FS=0.000;HaplotypeScore=0.7481;MLEAC=8;MLEAF=1.00;MQ=27.06;MQ0=7;QD=22.20 GT:AD:DP:GQ:PL 1/1:0,8:8:15:158,15,0 1/1:0,13:13:33:367,33,0 1/1:0,6:6:12:134,12,0 1/1:0,16:16:30:321,30,0
821
+ 1 762273 . G A 1972.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=75;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=31.44;MQ0=8;QD=26.30 GT:AD:DP:GQ:PL 1/1:0,25:25:69:774,69,0 1/1:0,15:15:36:385,36,0 1/1:0,18:18:42:457,42,0 1/1:0,17:17:36:382,36,0
822
+ 1 762589 . G C 2601.35 PASS AC=8;AF=1.00;AN=8;DP=100;Dels=0.00;FS=0.000;HaplotypeScore=0.4972;MLEAC=8;MLEAF=1.00;MQ=38.85;MQ0=2;QD=26.01 GT:AD:DP:GQ:PL 1/1:0,26:27:66:688,66,0 1/1:0,31:31:81:815,81,0 1/1:1,20:21:48:510,48,0 1/1:0,21:21:60:614,60,0
823
+ 1 762592 . C G 2596.35 PASS AC=8;AF=1.00;AN=8;DP=101;Dels=0.00;FS=0.000;HaplotypeScore=0.8585;MLEAC=8;MLEAF=1.00;MQ=38.33;MQ0=4;QD=25.71 GT:AD:DP:GQ:PL 1/1:0,27:27:72:728,72,0 1/1:1,31:32:87:857,87,0 1/1:2,20:22:48:472,48,0 1/1:0,20:20:57:565,57,0
824
+ 1 762601 . T C 3087.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.698;DP=106;Dels=0.00;FS=0.000;HaplotypeScore=1.5417;MLEAC=8;MLEAF=1.00;MQ=38.19;MQ0=4;MQRankSum=0.978;QD=29.13;ReadPosRankSum=-0.257 GT:AD:DP:GQ:PL 1/1:1,27:28:81:877,81,0 1/1:1,32:33:87:941,87,0 1/1:2,20:22:51:565,51,0 1/1:0,23:23:66:730,66,0
825
+ 1 762632 . T A 3420.35 PASS AC=8;AF=1.00;AN=8;DP=111;Dels=0.00;FS=0.000;HaplotypeScore=1.1522;MLEAC=8;MLEAF=1.00;MQ=37.88;MQ0=4;QD=30.81 GT:AD:DP:GQ:PL 1/1:0,29:29:84:920,84,0 1/1:1,34:35:96:1068,96,0 1/1:2,18:20:51:583,51,0 1/1:0,26:26:78:875,78,0
826
+ 1 763394 . G A 903.09 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.420;DP=83;Dels=0.00;FS=10.360;HaplotypeScore=0.2892;MLEAC=4;MLEAF=0.500;MQ=21.72;MQ0=33;MQRankSum=0.261;QD=10.88;ReadPosRankSum=0.352 GT:AD:DP:GQ:PL 0/1:13,6:19:35:35,0,154 0/1:8,17:25:41:356,0,41 0/1:8,15:23:0:253,0,0 0/1:3,13:16:20:289,0,20
827
+ 1 766105 . T A 2488.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=137;Dels=0.00;FS=0.000;HaplotypeScore=0.5567;MLEAC=8;MLEAF=1.00;MQ=28.77;MQ0=59;QD=18.16 GT:AD:DP:GQ:PL 1/1:4,34:38:84:959,84,0 1/1:7,24:31:51:563,51,0 1/1:9,25:34:45:517,45,0 1/1:13,21:34:42:475,42,0
828
+ 1 767780 . G A 4340.35 PASS AC=8;AF=1.00;AN=8;DP=138;Dels=0.00;FS=0.000;HaplotypeScore=0.9388;MLEAC=8;MLEAF=1.00;MQ=40.13;MQ0=1;QD=31.45 GT:AD:DP:GQ:PL 1/1:0,34:34:87:974,87,0 1/1:0,38:38:99:1170,108,0 1/1:0,38:38:99:1303,114,0 1/1:0,28:28:84:919,84,0
829
+ 1 768253 . A C 3854.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=-0.028;DP=130;Dels=0.00;FS=3.160;HaplotypeScore=0.4623;MLEAC=8;MLEAF=1.00;MQ=46.85;MQ0=6;MQRankSum=0.251;QD=29.65;ReadPosRankSum=0.810 GT:AD:DP:GQ:PL 1/1:1,29:30:47:865,47,0 1/1:0,36:36:96:1078,96,0 1/1:3,26:29:75:827,75,0 1/1:0,35:35:99:1110,102,0
830
+ 1 769829 . C A 3935.35 PASS AC=8;AF=1.00;AN=8;DP=127;Dels=0.00;FS=0.000;HaplotypeScore=0.6301;MLEAC=8;MLEAF=1.00;MQ=44.23;MQ0=3;QD=30.99 GT:AD:DP:GQ:PL 1/1:0,33:33:84:943,84,0 1/1:0,28:28:81:882,81,0 1/1:0,35:35:99:1199,105,0 1/1:0,30:31:84:937,84,0
831
+ 1 770075 . C T 2648.35 PASS AC=8;AF=1.00;AN=8;DP=97;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=34.25;MQ0=9;QD=27.30 GT:AD:DP:GQ:PL 1/1:0,29:29:69:782,69,0 1/1:0,24:24:60:644,60,0 1/1:0,26:26:72:785,72,0 1/1:0,18:18:42:463,42,0
832
+ 1 770568 . A G 1024.37 PASS AC=8;AF=1.00;AN=8;DP=42;Dels=0.00;FS=0.000;HaplotypeScore=1.0430;MLEAC=8;MLEAF=1.00;MQ=34.61;MQ0=4;QD=24.39 GT:AD:DP:GQ:PL 1/1:0,13:13:24:245,24,0 1/1:0,8:8:21:223,21,0 1/1:0,12:12:30:329,30,0 1/1:0,9:9:24:253,24,0
833
+ 1 770918 . T G 822.39 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=44;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=23.73;MQ0=13;QD=18.69 GT:AD:DP:GQ:PL 1/1:0,11:11:18:174,18,0 1/1:0,13:13:24:237,24,0 1/1:0,8:8:21:235,21,0 1/1:0,12:12:21:202,21,0
834
+ 1 771410 . C T 2794.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=-0.375;DP=169;Dels=0.00;FS=0.000;HaplotypeScore=0.9894;MLEAC=8;MLEAF=1.00;MQ=25.78;MQ0=71;MQRankSum=0.661;QD=16.53;ReadPosRankSum=0.339 GT:AD:DP:GQ:PL 1/1:12,29:41:54:580,54,0 1/1:5,34:39:87:930,87,0 1/1:11,32:43:41:732,41,0 1/1:14,31:46:54:578,54,0
835
+ 1 771823 . T C 3212.34 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=145;Dels=0.00;FS=0.000;HaplotypeScore=1.1246;MLEAC=8;MLEAF=1.00;MQ=34.48;MQ0=17;QD=22.15 GT:AD:DP:GQ:PL 1/1:0,34:34:69:772,69,0 1/1:0,45:45:87:938,87,0 1/1:0,32:32:72:757,72,0 1/1:0,34:34:72:771,72,0
836
+ 1 772755 . A C 2977.35 PASS AC=8;AF=1.00;AN=8;DP=97;Dels=0.00;FS=0.000;HaplotypeScore=0.1835;MLEAC=8;MLEAF=1.00;MQ=54.39;MQ0=0;QD=30.69 GT:AD:DP:GQ:PL 1/1:0,23:23:69:722,69,0 1/1:0,24:24:72:723,72,0 1/1:0,23:23:69:746,69,0 1/1:0,27:27:75:812,75,0
837
+ 1 774736 . A C 4662.35 PASS AC=8;AF=1.00;AN=8;DP=159;Dels=0.00;FS=0.000;HaplotypeScore=2.9516;MLEAC=8;MLEAF=1.00;MQ=47.68;MQ0=2;QD=29.32 GT:AD:DP:GQ:PL 1/1:0,40:40:99:1319,120,0 1/1:0,44:44:99:1252,114,0 1/1:0,38:38:99:1084,99,0 1/1:0,37:37:93:1033,93,0
838
+ 1 774785 . G A 3679.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=-1.603;DP=137;Dels=0.00;FS=3.278;HaplotypeScore=6.6404;MLEAC=8;MLEAF=1.00;MQ=40.88;MQ0=2;MQRankSum=0.646;QD=26.86;ReadPosRankSum=0.259 GT:AD:DP:GQ:PL 1/1:0,28:28:78:840,78,0 1/1:0,40:40:99:1151,102,0 1/1:1,40:41:62:1029,62,0 1/1:0,27:27:63:685,63,0
839
+ 1 774874 . A C 1572.57 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.620;DP=67;Dels=0.00;FS=0.000;HaplotypeScore=3.2304;MLEAC=8;MLEAF=1.00;MQ=31.30;MQ0=2;MQRankSum=1.874;QD=23.47;ReadPosRankSum=1.715 GT:AD:DP:GQ:PL 1/1:1,15:16:42:463,42,0 1/1:1,22:23:54:558,54,0 1/1:1,12:14:7:264,7,0 1/1:0,14:14:30:313,30,0
840
+ 1 774883 . G A 1185.18 PASS AC=6;AF=0.750;AN=8;BaseQRankSum=1.498;DP=69;Dels=0.00;FS=1.126;HaplotypeScore=3.0137;MLEAC=6;MLEAF=0.750;MQ=34.67;MQ0=2;MQRankSum=-1.153;QD=17.18;ReadPosRankSum=3.223 GT:AD:DP:GQ:PL 1/1:2,13:16:5:362,5,0 1/1:2,17:19:18:405,18,0 0/1:5,10:15:83:225,0,83 0/1:5,14:19:35:226,0,35
841
+ 1 774900 . C G 426.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=0.944;DP=68;Dels=0.00;FS=2.097;HaplotypeScore=3.3988;MLEAC=4;MLEAF=0.500;MQ=35.27;MQ0=1;MQRankSum=-2.122;QD=6.28;ReadPosRankSum=-1.239 GT:AD:DP:GQ:PL 0/1:14,5:19:71:71,0,113 0/1:5,10:16:89:210,0,89 0/1:9,6:15:99:128,0,200 0/1:12,6:18:50:50,0,255
842
+ 1 774923 . G C 1814.35 PASS AC=8;AF=1.00;AN=8;DP=68;Dels=0.00;FS=0.000;HaplotypeScore=1.1275;MLEAC=8;MLEAF=1.00;MQ=40.68;MQ0=1;QD=26.68 GT:AD:DP:GQ:PL 1/1:0,16:16:45:472,45,0 1/1:0,17:17:45:458,45,0 1/1:0,14:14:39:394,39,0 1/1:0,21:21:48:516,48,0
843
+ 1 774942 . G C 40.94 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-2.949;DP=107;Dels=0.00;FS=15.456;HaplotypeScore=5.1172;MLEAC=2;MLEAF=0.250;MQ=44.89;MQ0=1;MQRankSum=-3.177;QD=0.74;ReadPosRankSum=0.059 GT:AD:DP:GQ:PL 0/1:18,8:27:46:46,0,354 0/0:21,5:26:0:0,0,398 0/0:23,3:26:26:0,26,478 0/1:21,7:28:26:26,0,431
844
+ 1 774953 . G A 30.34 LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=-3.381;DP=130;Dels=0.00;FS=19.675;HaplotypeScore=4.4426;MLEAC=1;MLEAF=0.125;MQ=47.25;MQ0=1;MQRankSum=3.652;QD=0.87;ReadPosRankSum=-2.798 GT:AD:DP:GQ:PL 0/1:27,7:35:62:62,0,541 0/0:24,5:29:54:0,54,548 0/0:29,1:30:81:0,81,841 0/0:35,1:36:48:0,48,736
845
+ 1 775426 . G A 3461.35 PASS AC=8;AF=1.00;AN=8;DP=113;Dels=0.00;FS=0.000;HaplotypeScore=0.3526;MLEAC=8;MLEAF=1.00;MQ=38.48;MQ0=0;QD=30.63 GT:AD:DP:GQ:PL 1/1:0,30:30:81:883,81,0 1/1:0,25:25:69:754,69,0 1/1:0,36:36:99:1130,102,0 1/1:0,22:22:66:720,66,0
846
+ 1 775659 . A G 3132.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.697;DP=110;Dels=0.00;FS=0.000;HaplotypeScore=0.4251;MLEAC=8;MLEAF=1.00;MQ=44.46;MQ0=10;MQRankSum=-0.554;QD=28.48;ReadPosRankSum=-0.069 GT:AD:DP:GQ:PL 1/1:0,26:26:72:800,72,0 1/1:1,30:31:75:823,75,0 1/1:0,25:25:66:746,66,0 1/1:0,28:28:72:789,72,0
847
+ 1 777122 . A T 4157.35 PASS AC=8;AF=1.00;AN=8;DP=125;Dels=0.00;FS=0.000;HaplotypeScore=0.2080;MLEAC=8;MLEAF=1.00;MQ=54.10;MQ0=0;QD=33.26 GT:AD:DP:GQ:PL 1/1:0,32:32:90:1041,90,0 1/1:0,31:31:93:1056,93,0 1/1:0,28:28:84:965,84,0 1/1:0,33:34:99:1121,99,0
848
+ 1 778569 . A G 4524.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.711;DP=166;Dels=0.00;FS=0.000;HaplotypeScore=2.2756;MLEAC=8;MLEAF=1.00;MQ=43.12;MQ0=3;MQRankSum=-0.414;QD=27.26;ReadPosRankSum=0.096 GT:AD:DP:GQ:PL 1/1:0,50:50:99:1276,120,0 1/1:0,39:39:99:1122,108,0 1/1:0,49:49:99:1468,132,0 1/1:1,27:28:66:684,66,0
849
+ 1 780027 . G T 5389.35 PASS AC=8;AF=1.00;AN=8;DP=160;Dels=0.00;FS=0.000;HaplotypeScore=2.0997;MLEAC=8;MLEAF=1.00;MQ=59.04;MQ0=0;QD=33.68 GT:AD:DP:GQ:PL 1/1:0,32:32:90:1054,90,0 1/1:0,47:47:99:1603,138,0 1/1:0,37:37:99:1307,111,0 1/1:0,43:43:99:1451,126,0
850
+ 1 780785 . T A 4637.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.660;DP=145;Dels=0.00;FS=0.000;HaplotypeScore=1.8405;MLEAC=8;MLEAF=1.00;MQ=50.86;MQ0=1;MQRankSum=-0.625;QD=31.98;ReadPosRankSum=0.914 GT:AD:DP:GQ:PL 1/1:0,28:28:81:913,81,0 1/1:1,38:39:99:1242,111,0 1/1:0,37:37:99:1228,108,0 1/1:1,40:41:99:1280,114,0
851
+ 1 783304 . T C 4368.35 PASS AC=8;AF=1.00;AN=8;DP=135;Dels=0.00;FS=0.000;HaplotypeScore=0.6338;MLEAC=8;MLEAF=1.00;MQ=38.54;MQ0=2;QD=32.36 GT:AD:DP:GQ:PL 1/1:0,27:27:75:851,75,0 1/1:0,34:34:93:1035,93,0 1/1:0,38:38:99:1299,114,0 1/1:0,36:36:99:1209,108,0
852
+ 1 785050 . G A 4332.35 PASS AC=8;AF=1.00;AN=8;DP=128;Dels=0.00;FS=0.000;HaplotypeScore=1.4686;MLEAC=8;MLEAF=1.00;MQ=58.86;MQ0=0;QD=33.85 GT:AD:DP:GQ:PL 1/1:0,33:33:99:1134,99,0 1/1:0,31:31:90:1023,90,0 1/1:0,26:26:78:894,78,0 1/1:0,38:38:99:1307,114,0
853
+ 1 785989 . T C 3348.35 PASS AC=8;AF=1.00;AN=8;DP=103;Dels=0.00;FS=0.000;HaplotypeScore=1.0061;MLEAC=8;MLEAF=1.00;MQ=55.99;MQ0=0;QD=32.51 GT:AD:DP:GQ:PL 1/1:0,13:13:39:442,39,0 1/1:0,30:30:87:966,87,0 1/1:0,31:31:93:1045,93,0 1/1:0,29:29:81:921,81,0
854
+ 1 786247 . G A 1240.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=0.000;DP=59;Dels=0.00;FS=0.000;HaplotypeScore=0.3670;MLEAC=8;MLEAF=1.00;MQ=29.62;MQ0=15;MQRankSum=1.575;QD=21.02;ReadPosRankSum=0.551 GT:AD:DP:GQ:PL 1/1:3,13:16:27:270,27,0 1/1:2,11:13:30:310,30,0 1/1:2,14:16:36:393,36,0 1/1:2,12:14:30:293,30,0
855
+ 1 786810 . G A 369.75 HARD_TO_VALIDATE AC=6;AF=1.00;AN=6;DP=25;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=6;MLEAF=1.00;MQ=25.05;MQ0=10;QD=16.08 GT:AD:DP:GQ:PL ./. 1/1:0,5:5:9:100,9,0 1/1:0,12:12:18:202,18,0 1/1:0,6:6:9:93,9,0
856
+ 1 787019 . C T 512.96 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=30;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=27.82;MQ0=11;QD=17.10 GT:AD:DP:GQ:PL 1/1:0,6:6:6:70,6,0 1/1:0,9:9:15:178,15,0 1/1:0,4:4:6:70,6,0 1/1:0,11:11:18:220,18,0
857
+ 1 787070 . A G 530.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-4.783;DP=53;Dels=0.00;FS=0.000;HaplotypeScore=0.3681;MLEAC=4;MLEAF=0.500;MQ=33.15;MQ0=7;MQRankSum=-0.686;QD=10.02;ReadPosRankSum=-1.317 GT:AD:DP:GQ:PL 0/1:5,4:9:79:96,0,79 0/1:6,7:13:97:167,0,97 0/1:5,8:13:82:88,0,82 0/1:7,11:18:99:212,0,126
858
+ 1 787135 . A G 1560.36 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=63;Dels=0.00;FS=0.000;HaplotypeScore=0.3943;MLEAC=8;MLEAF=1.00;MQ=31.66;MQ0=7;QD=24.77 GT:AD:DP:GQ:PL 1/1:0,13:13:27:309,27,0 1/1:0,18:18:39:446,39,0 1/1:0,16:16:36:399,36,0 1/1:0,16:16:39:432,39,0
859
+ 1 787185 . G A 1075.38 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=55;Dels=0.00;FS=0.000;HaplotypeScore=0.3670;MLEAC=8;MLEAF=1.00;MQ=27.61;MQ0=10;QD=19.55 GT:AD:DP:GQ:PL 1/1:0,20:20:39:427,39,0 1/1:0,13:13:21:233,21,0 1/1:0,9:9:18:199,18,0 1/1:0,12:13:24:242,24,0
860
+ 1 787205 . G A 1339.37 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=60;Dels=0.00;FS=0.000;HaplotypeScore=0.2489;MLEAC=8;MLEAF=1.00;MQ=29.34;MQ0=10;QD=22.32 GT:AD:DP:GQ:PL 1/1:0,21:21:42:468,42,0 1/1:0,13:13:30:323,30,0 1/1:0,11:11:18:202,18,0 1/1:0,15:15:36:372,36,0
861
+ 1 787262 . C G 2584.35 PASS AC=8;AF=1.00;AN=8;DP=92;Dels=0.00;FS=0.000;HaplotypeScore=0.0000;MLEAC=8;MLEAF=1.00;MQ=42.39;MQ0=5;QD=28.09 GT:AD:DP:GQ:PL 1/1:0,22:22:66:738,66,0 1/1:0,21:21:51:560,51,0 1/1:0,26:26:60:671,60,0 1/1:0,23:23:57:641,57,0
862
+ 1 787399 . G T 3114.35 PASS AC=8;AF=1.00;AN=8;DP=100;Dels=0.00;FS=0.000;HaplotypeScore=0.9305;MLEAC=8;MLEAF=1.00;MQ=50.85;MQ0=0;QD=31.14 GT:AD:DP:GQ:PL 1/1:0,21:21:60:686,60,0 1/1:0,27:27:72:810,72,0 1/1:0,19:19:54:626,54,0 1/1:0,33:33:90:1018,90,0
863
+ 1 787685 . G T 4651.35 PASS AC=8;AF=1.00;AN=8;DP=145;Dels=0.00;FS=0.000;HaplotypeScore=1.4084;MLEAC=8;MLEAF=1.00;MQ=46.47;MQ0=0;QD=32.08 GT:AD:DP:GQ:PL 1/1:0,34:34:93:1064,93,0 1/1:0,31:31:90:983,90,0 1/1:0,42:42:99:1421,126,0 1/1:0,37:38:99:1209,108,0
864
+ 1 787844 . C T 4315.35 PASS AC=8;AF=1.00;AN=8;DP=139;Dels=0.00;FS=0.000;HaplotypeScore=0.4987;MLEAC=8;MLEAF=1.00;MQ=39.47;MQ0=4;QD=31.05 GT:AD:DP:GQ:PL 1/1:0,33:33:90:1014,90,0 1/1:0,33:33:87:976,87,0 1/1:0,34:34:99:1150,102,0 1/1:0,38:38:99:1201,108,0
865
+ 1 788713 . T C 2504.35 PASS AC=8;AF=1.00;AN=8;DP=87;Dels=0.00;FS=0.000;HaplotypeScore=0.1972;MLEAC=8;MLEAF=1.00;MQ=38.89;MQ0=4;QD=28.79 GT:AD:DP:GQ:PL 1/1:0,18:18:42:480,42,0 1/1:0,24:24:60:672,60,0 1/1:0,22:22:57:650,57,0 1/1:0,23:23:66:728,66,0
866
+ 1 788840 . T C 288.58 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-3.252;DP=138;Dels=0.00;FS=15.595;HaplotypeScore=3.0085;MLEAC=4;MLEAF=0.500;MQ=30.24;MQ0=23;MQRankSum=-3.153;QD=2.09;ReadPosRankSum=1.113 GT:AD:DP:GQ:PL 0/1:16,14:33:99:169,0,184 0/1:19,20:39:99:108,0,385 0/1:19,17:37:6:6,0,417 0/1:17,11:29:37:37,0,254
867
+ 1 788844 . C G 380.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-2.837;DP=143;Dels=0.00;FS=21.049;HaplotypeScore=3.0085;MLEAC=4;MLEAF=0.500;MQ=30.26;MQ0=23;MQRankSum=-2.077;QD=2.66;ReadPosRankSum=-0.532 GT:AD:DP:GQ:PL 0/1:22,11:34:99:196,0,336 0/1:28,12:40:93:93,0,512 0/1:23,16:39:44:44,0,446 0/1:20,10:30:80:80,0,289
868
+ 1 789099 . G A 922.84 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=3.014;DP=61;Dels=0.00;FS=0.000;HaplotypeScore=0.7110;MLEAC=7;MLEAF=0.875;MQ=27.39;MQ0=12;MQRankSum=0.843;QD=15.13;ReadPosRankSum=0.586 GT:AD:DP:GQ:PL 1/1:3,12:15:1:282,1,0 1/1:2,17:19:36:379,36,0 0/1:7,10:17:41:57,0,41 1/1:2,8:10:5:234,5,0
869
+ 1 789141 . G C 884.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.166;DP=166;Dels=0.00;FS=3.137;HaplotypeScore=1.1444;MLEAC=4;MLEAF=0.500;MQ=30.28;MQ0=29;MQRankSum=3.597;QD=5.33;ReadPosRankSum=-2.691 GT:AD:DP:GQ:PL 0/1:29,17:46:99:379,0,448 0/1:34,7:41:58:58,0,603 0/1:26,16:42:99:287,0,362 0/1:28,9:37:99:193,0,476
870
+ 1 789242 . C G 49.90 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-3.508;DP=124;Dels=0.00;FS=35.198;HaplotypeScore=4.8477;MLEAC=2;MLEAF=0.250;MQ=39.09;MQ0=7;MQRankSum=0.076;QD=0.86;ReadPosRankSum=-4.272 GT:AD:DP:GQ:PL 0/1:26,5:31:40:40,0,420 0/0:37,1:38:60:0,60,865 0/0:27,1:28:57:0,57,617 0/1:21,6:27:44:44,0,293
871
+ 1 789256 . T C 2491.35 PASS AC=8;AF=1.00;AN=8;DP=119;Dels=0.00;FS=0.000;HaplotypeScore=1.0106;MLEAC=8;MLEAF=1.00;MQ=41.37;MQ0=5;QD=20.94 GT:AD:DP:GQ:PL 1/1:0,30:30:63:613,63,0 1/1:0,37:37:87:862,87,0 1/1:0,30:31:63:652,63,0 1/1:0,21:21:39:390,39,0
872
+ 1 789465 . C T 1960.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.886;DP=172;Dels=0.00;FS=0.604;HaplotypeScore=0.4138;MLEAC=4;MLEAF=0.500;MQ=32.48;MQ0=23;MQRankSum=-1.166;QD=11.40;ReadPosRankSum=-1.078 GT:AD:DP:GQ:PL 0/1:17,23:40:99:571,0,302 0/1:26,27:53:99:542,0,431 0/1:24,19:43:99:398,0,602 0/1:14,21:35:99:482,0,255
873
+ 1 792263 . A G 3847.35 PASS AC=8;AF=1.00;AN=8;DP=142;Dels=0.00;FS=0.000;HaplotypeScore=0.4771;MLEAC=8;MLEAF=1.00;MQ=41.20;MQ0=4;QD=27.09 GT:AD:DP:GQ:PL 1/1:0,36:36:90:984,90,0 1/1:0,28:28:84:878,84,0 1/1:1,40:41:99:1079,105,0 1/1:1,36:37:93:932,93,0
874
+ 1 792480 . C T 5178.35 PASS AC=8;AF=1.00;AN=8;DP=164;Dels=0.00;FS=0.000;HaplotypeScore=0.8721;MLEAC=8;MLEAF=1.00;MQ=44.96;MQ0=2;QD=31.58 GT:AD:DP:GQ:PL 1/1:0,30:30:90:1017,90,0 1/1:0,47:47:99:1400,126,0 1/1:0,42:42:99:1294,114,0 1/1:0,45:45:99:1493,135,0
875
+ 1 793208 . C G 234.10 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=1.402;DP=51;Dels=0.00;FS=33.294;HaplotypeScore=0.0000;MLEAC=4;MLEAF=0.500;MQ=25.63;MQ0=11;MQRankSum=3.911;QD=4.59;ReadPosRankSum=-3.527 GT:AD:DP:GQ:PL 0/1:7,1:8:21:21,0,111 0/1:8,7:15:99:105,0,188 0/1:12,9:21:99:127,0,229 0/1:6,1:7:13:13,0,83
876
+ 1 793393 . A G 262.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-4.563;DP=86;Dels=0.00;FS=5.456;HaplotypeScore=0.4989;MLEAC=4;MLEAF=0.500;MQ=25.24;MQ0=40;MQRankSum=4.105;QD=3.06;ReadPosRankSum=1.120 GT:AD:DP:GQ:PL 0/1:10,4:14:74:74,0,112 0/1:21,7:28:84:84,0,281 0/1:13,7:20:83:83,0,167 0/1:19,4:23:54:54,0,200
877
+ 1 793429 . T C 1025.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=-0.352;DP=95;Dels=0.00;FS=3.687;HaplotypeScore=0.9971;MLEAC=4;MLEAF=0.500;MQ=27.65;MQ0=37;MQRankSum=2.642;QD=10.80;ReadPosRankSum=-0.417 GT:AD:DP:GQ:PL 0/1:9,3:12:49:49,0,146 0/1:10,22:32:99:472,0,158 0/1:8,17:25:59:306,0,59 0/1:15,11:26:92:231,0,92
878
+ 1 793507 . T C 44.38 LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=2.568;DP=97;Dels=0.00;FS=11.205;HaplotypeScore=0.5058;MLEAC=1;MLEAF=0.125;MQ=44.17;MQ0=8;MQRankSum=-2.233;QD=2.22;ReadPosRankSum=-1.958 GT:AD:DP:GQ:PL 0/1:16,4:20:76:76,0,460 0/0:29,2:31:44:0,44,812 0/0:23,1:24:17:0,17,489 0/0:18,4:22:45:0,45,497
879
+ 1 793750 . G T 257.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=0.165;DP=157;Dels=0.00;FS=7.645;HaplotypeScore=1.3263;MLEAC=4;MLEAF=0.500;MQ=53.32;MQ0=2;MQRankSum=-8.372;QD=1.64;ReadPosRankSum=0.070 GT:AD:DP:GQ:PL 0/1:30,8:38:61:61,0,858 0/1:41,9:50:80:80,0,1192 0/1:28,7:35:90:90,0,842 0/1:26,8:34:59:59,0,763
880
+ 1 796643 . C T 308.35 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=0.431;DP=173;Dels=0.00;FS=47.967;HaplotypeScore=1.0711;MLEAC=4;MLEAF=0.500;MQ=30.35;MQ0=50;MQRankSum=-3.470;QD=1.78;ReadPosRankSum=-1.839 GT:AD:DP:GQ:PL 0/1:34,11:45:99:151,0,573 0/1:40,9:49:66:66,0,859 0/1:33,9:42:8:8,0,791 0/1:28,9:37:99:115,0,596
881
+ 1 796727 . G T 1849.94 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=5.694;DP=169;Dels=0.01;FS=15.992;HaplotypeScore=1.6915;MLEAC=4;MLEAF=0.500;MQ=39.64;MQ0=18;MQRankSum=-5.796;QD=10.95;ReadPosRankSum=-1.410 GT:AD:DP:GQ:PL 0/1:27,25:52:99:382,0,684 0/1:15,25:40:99:547,0,320 0/1:12,26:38:99:647,0,132 0/1:21,16:37:99:306,0,473
882
+ 1 796767 . G A 3015.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=0.576;DP=212;Dels=0.00;FS=1.779;HaplotypeScore=3.6355;MLEAC=4;MLEAF=0.500;MQ=41.24;MQ0=15;MQRankSum=-8.168;QD=14.23;ReadPosRankSum=0.666 GT:AD:DP:GQ:PL 0/1:25,34:59:99:706,0,662 0/1:16,34:50:99:857,0,407 0/1:14,33:47:99:874,0,311 0/1:28,26:54:99:611,0,753
883
+ 1 796775 . T C 2055.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=2.932;DP=218;Dels=0.00;FS=4.096;HaplotypeScore=2.1009;MLEAC=4;MLEAF=0.500;MQ=40.71;MQ0=17;MQRankSum=7.855;QD=9.43;ReadPosRankSum=-1.205 GT:AD:DP:GQ:PL 0/1:38,26:64:99:676,0,762 0/1:33,15:48:99:362,0,815 0/1:36,13:49:99:300,0,946 0/1:29,28:57:99:750,0,621
884
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885
+ 1 798026 . C T 4847.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.686;DP=154;Dels=0.00;FS=0.000;HaplotypeScore=0.6918;MLEAC=8;MLEAF=1.00;MQ=43.20;MQ0=3;MQRankSum=0.883;QD=31.48;ReadPosRankSum=-0.241 GT:AD:DP:GQ:PL 1/1:0,37:37:99:1126,99,0 1/1:0,36:36:93:1063,93,0 1/1:1,31:32:93:1093,93,0 1/1:1,48:49:99:1591,138,0
886
+ 1 799463 . T C 5508.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.672;DP=172;Dels=0.00;FS=0.000;HaplotypeScore=1.4334;MLEAC=8;MLEAF=1.00;MQ=58.42;MQ0=0;MQRankSum=1.631;QD=32.03;ReadPosRankSum=-1.329 GT:AD:DP:GQ:PL 1/1:1,36:37:99:1171,105,0 1/1:0,51:51:99:1658,153,0 1/1:0,54:54:99:1773,159,0 1/1:0,30:30:84:932,84,0
887
+ 1 800007 . T C 5259.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.644;DP=160;Dels=0.00;FS=3.239;HaplotypeScore=1.4593;MLEAC=8;MLEAF=1.00;MQ=49.64;MQ0=2;MQRankSum=0.110;QD=32.87;ReadPosRankSum=1.579 GT:AD:DP:GQ:PL 1/1:0,34:34:96:1093,96,0 1/1:0,32:32:90:1021,90,0 1/1:0,38:38:99:1304,114,0 1/1:1,55:56:99:1867,138,0
888
+ 1 800383 . C T 4448.35 PASS AC=8;AF=1.00;AN=8;DP=133;Dels=0.00;FS=0.000;HaplotypeScore=0.6749;MLEAC=8;MLEAF=1.00;MQ=41.77;MQ0=2;QD=33.45 GT:AD:DP:GQ:PL 1/1:0,33:33:90:1007,90,0 1/1:0,30:30:90:1033,90,0 1/1:0,37:37:99:1297,111,0 1/1:0,33:33:99:1137,99,0
889
+ 1 801943 . C T 5456.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=0.764;DP=201;Dels=0.00;FS=0.000;HaplotypeScore=1.7830;MLEAC=8;MLEAF=1.00;MQ=47.22;MQ0=9;MQRankSum=1.979;QD=27.15;ReadPosRankSum=1.246 GT:AD:DP:GQ:PL 1/1:1,52:53:99:1375,126,0 1/1:2,63:65:99:1820,168,0 1/1:1,46:47:99:1222,111,0 1/1:0,36:36:96:1065,96,0
890
+ 1 802006 . T C 1019.73 HARD_TO_VALIDATE AC=5;AF=0.625;AN=8;BaseQRankSum=0.922;DP=118;Dels=0.00;FS=0.000;HaplotypeScore=0.8675;MLEAC=5;MLEAF=0.625;MQ=23.02;MQ0=39;MQRankSum=2.345;QD=8.64;ReadPosRankSum=-0.365 GT:AD:DP:GQ:PL 0/1:7,24:32:21:331,0,21 1/1:7,31:38:45:462,45,0 0/1:8,16:24:7:141,0,7 0/1:10,14:24:78:119,0,78
891
+ 1 802093 . G A 1921.99 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;BaseQRankSum=4.761;DP=192;Dels=0.00;FS=13.460;HaplotypeScore=2.5518;MLEAC=8;MLEAF=1.00;MQ=20.97;MQ0=42;MQRankSum=3.388;QD=10.01;ReadPosRankSum=2.215 GT:AD:DP:GQ:PL 1/1:6,42:51:57:568,57,0 1/1:15,34:49:2:386,2,0 1/1:6,37:43:45:466,45,0 1/1:9,40:49:51:527,51,0
892
+ 1 802104 . T C 167.91 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.374;DP=180;Dels=0.00;FS=7.815;HaplotypeScore=1.8710;MLEAC=3;MLEAF=0.375;MQ=21.28;MQ0=32;MQRankSum=0.698;QD=1.23;ReadPosRankSum=0.889 GT:AD:DP:GQ:PL 0/1:33,19:53:99:115,0,353 0/0:38,6:44:42:0,42,419 0/1:34,6:40:55:55,0,319 0/1:29,14:43:32:32,0,355
893
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894
+ 1 802191 . G A 242.93 HARD_TO_VALIDATE;LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=3.190;DP=489;Dels=0.00;FS=26.992;HaplotypeScore=5.0006;MLEAC=3;MLEAF=0.375;MQ=12.55;MQ0=127;MQRankSum=-1.072;QD=0.61;ReadPosRankSum=-2.771 GT:AD:DP:GQ:PL 0/1:123,33:161:46:46,0,461 0/1:90,44:135:99:101,0,619 0/1:71,29:101:99:130,0,425 0/0:74,18:92:25:0,25,512
895
+ 1 802240 . G A 444.94 HARD_TO_VALIDATE;LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=4.361;DP=409;Dels=0.00;FS=3.661;HaplotypeScore=13.8502;MLEAC=4;MLEAF=0.500;MQ=11.67;MQ0=126;MQRankSum=2.054;QD=1.09;ReadPosRankSum=-1.825 GT:AD:DP:GQ:PL 0/1:95,36:137:63:63,0,197 0/1:74,29:105:99:151,0,203 0/1:63,26:89:99:159,0,200 0/1:62,16:78:99:104,0,139
896
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897
+ 1 802338 . G A 71.84 HARD_TO_VALIDATE;LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=4.885;DP=252;Dels=0.00;FS=4.009;HaplotypeScore=3.4475;MLEAC=2;MLEAF=0.250;MQ=33.47;MQ0=33;MQRankSum=-6.852;QD=0.51;ReadPosRankSum=0.126 GT:AD:DP:GQ:PL 0/1:62,20:84:57:57,0,916 0/0:46,16:63:4:0,4,795 0/1:35,22:57:47:47,0,556 0/0:30,18:48:10:0,10,446
898
+ 1 802381 . T C 100.92 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.724;DP=247;Dels=0.00;FS=10.985;HaplotypeScore=5.8982;MLEAC=3;MLEAF=0.375;MQ=41.23;MQ0=21;MQRankSum=-8.977;QD=0.51;ReadPosRankSum=2.588 GT:AD:DP:GQ:PL 0/1:48,34:82:82:82,0,1014 0/1:50,22:72:21:21,0,1157 0/1:27,17:45:31:31,0,479 0/0:30,18:48:8:0,8,705
899
+ 1 804115 . G A 3168.35 HARD_TO_VALIDATE AC=8;AF=1.00;AN=8;DP=122;Dels=0.01;FS=0.000;HaplotypeScore=0.8149;MLEAC=8;MLEAF=1.00;MQ=32.50;MQ0=13;QD=25.97 GT:AD:DP:GQ:PL 1/1:0,31:31:87:931,87,0 1/1:0,32:32:75:806,75,0 1/1:0,25:25:54:564,54,0 1/1:0,33:33:87:893,87,0
900
+ 1 804540 . T C 3514.35 PASS AC=8;AF=1.00;AN=8;DP=128;Dels=0.00;FS=0.000;HaplotypeScore=1.2036;MLEAC=8;MLEAF=1.00;MQ=54.25;MQ0=0;QD=27.46 GT:AD:DP:GQ:PL 1/1:0,26:27:60:653,60,0 1/1:0,40:40:99:1188,117,0 1/1:0,29:29:72:798,72,0 1/1:0,32:32:90:901,90,0
901
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902
+ 1 807761 . C A 4326.35 PASS AC=8;AF=1.00;AN=8;DP=132;Dels=0.00;FS=0.000;HaplotypeScore=0.6692;MLEAC=8;MLEAF=1.00;MQ=56.39;MQ0=0;QD=32.78 GT:AD:DP:GQ:PL 1/1:0,30:30:84:998,84,0 1/1:0,32:32:96:1081,96,0 1/1:0,37:37:99:1151,99,0 1/1:0,33:33:99:1122,99,0
903
+ 1 808223 . G C 2815.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=0.779;DP=146;Dels=0.00;FS=4.743;HaplotypeScore=2.3492;MLEAC=8;MLEAF=1.00;MQ=38.40;MQ0=6;MQRankSum=1.669;QD=19.28;ReadPosRankSum=-0.172 GT:AD:DP:GQ:PL 1/1:6,32:38:57:736,57,0 1/1:5,28:33:38:573,38,0 1/1:2,33:36:84:791,84,0 1/1:3,34:39:78:741,78,0
904
+ 1 808631 . G A 5709.35 PASS AC=8;AF=1.00;AN=8;DP=168;Dels=0.00;FS=0.000;HaplotypeScore=0.5777;MLEAC=8;MLEAF=1.00;MQ=57.30;MQ0=0;QD=33.98 GT:AD:DP:GQ:PL 1/1:0,48:48:99:1660,144,0 1/1:0,52:52:99:1771,156,0 1/1:0,31:31:93:1054,93,0 1/1:0,37:37:99:1250,108,0
905
+ 1 808922 . G A 4842.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=2.046;DP=161;Dels=0.00;FS=2.053;HaplotypeScore=1.8536;MLEAC=8;MLEAF=1.00;MQ=44.59;MQ0=2;MQRankSum=2.416;QD=30.08;ReadPosRankSum=-1.587 GT:AD:DP:GQ:PL 1/1:0,41:43:99:1168,102,0 1/1:3,52:55:92:1668,92,0 1/1:3,29:32:65:964,65,0 1/1:0,31:31:93:1068,93,0
906
+ 1 808928 . C T 4981.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=3.331;DP=164;Dels=0.00;FS=0.000;HaplotypeScore=2.1898;MLEAC=8;MLEAF=1.00;MQ=45.32;MQ0=2;MQRankSum=2.469;QD=30.37;ReadPosRankSum=-1.714 GT:AD:DP:GQ:PL 1/1:0,45:45:99:1369,120,0 1/1:4,48:52:78:1537,78,0 1/1:3,32:35:45:1003,45,0 1/1:0,32:32:96:1098,96,0
907
+ 1 811523 . G C 34.33 LowQual AC=2;AF=1.00;AN=2;DP=7;Dels=0.00;FS=0.000;HaplotypeScore=2.3779;MLEAC=2;MLEAF=1.00;MQ=22.79;MQ0=0;QD=11.44 GT:AD:DP:GQ:PL ./. ./. 1/1:0,2:3:6:59,6,0 ./.
908
+ 1 811765 . C T 249.76 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=2.338;DP=27;Dels=0.00;FS=0.000;HaplotypeScore=3.3614;MLEAC=5;MLEAF=0.625;MQ=42.89;MQ0=2;MQRankSum=2.281;QD=9.61;ReadPosRankSum=-0.375 GT:AD:DP:GQ:PL 0/1:4,1:5:20:20,0,26 0/1:7,5:13:31:110,0,31 0/0:1,0:1:3:0,3,29 1/1:2,6:8:15:154,15,0
909
+ 1 812267 . A G 4127.35 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=-0.601;DP=144;Dels=0.00;FS=0.000;HaplotypeScore=0.7788;MLEAC=8;MLEAF=1.00;MQ=53.60;MQ0=0;MQRankSum=0.674;QD=28.66;ReadPosRankSum=-1.564 GT:AD:DP:GQ:PL 1/1:0,33:33:90:943,90,0 1/1:0,37:37:99:1123,108,0 1/1:0,38:38:99:1135,111,0 1/1:1,35:36:66:952,66,0
910
+ 1 812284 . C G 4278.42 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=1.096;DP=139;Dels=0.00;FS=12.308;HaplotypeScore=1.2249;MLEAC=8;MLEAF=1.00;MQ=53.39;MQ0=1;MQRankSum=3.667;QD=30.78;ReadPosRankSum=3.564 GT:AD:DP:GQ:PL 1/1:3,29:32:12:858,12,0 1/1:3,37:40:59:1192,59,0 1/1:0,31:31:90:1027,90,0 1/1:0,36:36:99:1227,108,0
911
+ 1 812751 . T C 4806.35 PASS AC=8;AF=1.00;AN=8;DP=149;Dels=0.00;FS=0.000;HaplotypeScore=1.3356;MLEAC=8;MLEAF=1.00;MQ=58.32;MQ0=6;QD=32.26 GT:AD:DP:GQ:PL 1/1:0,33:33:93:1083,93,0 1/1:0,39:39:99:1322,114,0 1/1:0,35:35:93:1062,93,0 1/1:0,42:42:99:1365,120,0
912
+ 1 813046 . G A 206.04 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-1.621;DP=196;Dels=0.00;FS=45.600;HaplotypeScore=3.2689;MLEAC=3;MLEAF=0.375;MQ=55.05;MQ0=2;MQRankSum=-9.272;QD=1.40;ReadPosRankSum=-6.063 GT:AD:DP:GQ:PL 0/0:41,8:49:24:0,24,1227 0/1:44,7:51:16:16,0,1343 0/1:35,10:45:99:100,0,1069 0/1:37,14:51:99:124,0,1114
913
+ 1 813050 . G A 415.67 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.965;DP=206;Dels=0.00;FS=58.563;HaplotypeScore=3.3115;MLEAC=4;MLEAF=0.500;MQ=54.58;MQ0=2;MQRankSum=-10.108;QD=2.02;ReadPosRankSum=-4.908 GT:AD:DP:GQ:PL 0/1:41,9:50:6:6,0,1223 0/1:46,7:53:15:15,0,1399 0/1:34,12:46:99:167,0,992 0/1:38,19:57:99:259,0,1082
914
+ 1 813067 . T C 1306.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-6.317;DP=231;Dels=0.00;FS=95.344;HaplotypeScore=2.2640;MLEAC=4;MLEAF=0.500;MQ=50.15;MQ0=4;MQRankSum=-12.391;QD=5.66;ReadPosRankSum=-2.322 GT:AD:DP:GQ:PL 0/1:38,19:57:99:217,0,1126 0/1:42,19:62:99:196,0,1286 0/1:31,20:51:99:364,0,958 0/1:28,32:61:99:562,0,795
915
+ 1 813089 . G A 181.09 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-2.956;DP=269;Dels=0.00;FS=31.765;HaplotypeScore=3.2728;MLEAC=2;MLEAF=0.250;MQ=49.05;MQ0=11;MQRankSum=-6.110;QD=1.36;ReadPosRankSum=3.047 GT:AD:DP:GQ:PL 0/1:50,10:60:16:16,0,1312 0/0:67,5:72:74:0,74,1675 0/0:58,5:64:50:0,50,1622 0/1:56,16:73:99:199,0,1396
916
+ 1 813109 . A C 1544.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.678;DP=266;Dels=0.00;FS=138.432;HaplotypeScore=3.1622;MLEAC=4;MLEAF=0.500;MQ=49.13;MQ0=10;MQRankSum=-13.542;QD=5.81;ReadPosRankSum=5.739 GT:AD:DP:GQ:PL 0/1:32,28:60:99:354,0,961 0/1:47,26:73:99:244,0,1343 0/1:40,22:62:99:403,0,1212 0/1:35,36:71:99:576,0,974
917
+ 1 813112 . T C 1426.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=8.086;DP=276;Dels=0.00;FS=147.958;HaplotypeScore=2.9925;MLEAC=4;MLEAF=0.500;MQ=48.30;MQ0=13;MQRankSum=-12.765;QD=5.17;ReadPosRankSum=5.328 GT:AD:DP:GQ:PL 0/1:36,27:63:99:327,0,835 0/1:52,26:78:99:184,0,1345 0/1:40,22:62:99:406,0,1135 0/1:36,37:73:99:542,0,887
918
+ 1 813237 . T C 42.53 LowQD;LowQual AC=1;AF=0.125;AN=8;BaseQRankSum=0.531;DP=216;Dels=0.00;FS=1.012;HaplotypeScore=1.7460;MLEAC=1;MLEAF=0.125;MQ=44.78;MQ0=13;MQRankSum=-8.844;QD=0.75;ReadPosRankSum=-0.916 GT:AD:DP:GQ:PL 0/0:48,13:61:25:0,25,1421 0/0:45,13:58:73:0,73,1445 0/1:46,11:57:74:74,0,1398 0/0:28,11:39:11:0,11,840
919
+ 1 813246 . G A 79.54 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-2.804;DP=224;Dels=0.00;FS=0.882;HaplotypeScore=2.3334;MLEAC=2;MLEAF=0.250;MQ=45.34;MQ0=14;MQRankSum=-9.524;QD=0.77;ReadPosRankSum=-0.079 GT:AD:DP:GQ:PL 0/0:49,15:64:6:0,6,1430 0/0:45,12:57:24:0,24,1408 0/1:48,12:60:99:102,0,1426 0/1:30,13:43:10:10,0,933
920
+ 1 813250 . G T 257.37 PASS AC=3;AF=0.375;AN=8;BaseQRankSum=1.697;DP=224;Dels=0.00;FS=1.771;HaplotypeScore=1.5870;MLEAC=3;MLEAF=0.375;MQ=45.10;MQ0=13;MQRankSum=-10.204;QD=1.51;ReadPosRankSum=-1.200 GT:AD:DP:GQ:PL 0/1:48,18:66:99:102,0,1441 0/0:41,13:54:6:0,6,1210 0/1:47,14:61:99:110,0,1415 0/1:29,14:43:78:78,0,851
921
+ 1 813288 . G T 1183.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.335;DP=237;Dels=0.00;FS=0.000;HaplotypeScore=2.6595;MLEAC=4;MLEAF=0.500;MQ=46.34;MQ0=12;MQRankSum=-12.139;QD=5.00;ReadPosRankSum=0.494 GT:AD:DP:GQ:PL 0/1:39,29:68:99:317,0,1169 0/1:37,26:63:99:289,0,1058 0/1:40,17:57:99:250,0,1221 0/1:28,21:49:99:360,0,798
922
+ 1 813291 . A G 1131.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.186;DP=232;Dels=0.00;FS=0.000;HaplotypeScore=2.1600;MLEAC=4;MLEAF=0.500;MQ=47.18;MQ0=12;MQRankSum=-12.013;QD=4.88;ReadPosRankSum=1.547 GT:AD:DP:GQ:PL 0/1:39,26:66:99:286,0,1190 0/1:38,22:61:99:262,0,1113 0/1:37,19:56:99:259,0,1117 0/1:28,21:49:99:357,0,772
923
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924
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926
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927
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930
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933
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934
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935
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936
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937
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938
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939
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940
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941
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942
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943
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945
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946
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949
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957
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960
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961
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962
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964
+ 1 814611 . A C 1273.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=3.920;DP=196;Dels=0.00;FS=40.953;HaplotypeScore=9.2575;MLEAC=4;MLEAF=0.500;MQ=52.13;MQ0=1;MQRankSum=-9.829;QD=6.50;ReadPosRankSum=1.718 GT:AD:DP:GQ:PL 0/1:21,20:41:99:491,0,545 0/1:36,24:60:99:471,0,1024 0/1:28,15:43:99:123,0,840 0/1:36,15:51:99:221,0,1050
965
+ 1 814618 . A G 383.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.348;DP=206;Dels=0.00;FS=15.409;HaplotypeScore=11.2933;MLEAC=4;MLEAF=0.500;MQ=51.68;MQ0=1;MQRankSum=-5.248;QD=1.86;ReadPosRankSum=1.288 GT:AD:DP:GQ:PL 0/1:35,7:42:97:97,0,1023 0/1:56,11:67:99:171,0,1501 0/1:34,12:46:80:80,0,998 0/1:41,9:50:68:68,0,1212
966
+ 1 814681 . A T 449.92 PASS AC=3;AF=0.375;AN=8;BaseQRankSum=-1.701;DP=229;Dels=0.00;FS=25.907;HaplotypeScore=0.7479;MLEAC=3;MLEAF=0.375;MQ=50.37;MQ0=0;MQRankSum=-4.418;QD=2.45;ReadPosRankSum=1.179 GT:AD:DP:GQ:PL 0/1:54,13:67:99:218,0,1521 0/1:46,15:61:99:222,0,1301 0/0:41,4:45:27:0,27,1261 0/1:48,7:55:44:44,0,1395
967
+ 1 814694 . A C 1744.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-10.436;DP=206;Dels=0.00;FS=77.760;HaplotypeScore=1.6605;MLEAC=4;MLEAF=0.500;MQ=50.95;MQ0=0;MQRankSum=-9.955;QD=8.47;ReadPosRankSum=2.199 GT:AD:DP:GQ:PL 0/1:27,28:55:99:518,0,786 0/1:28,28:56:99:469,0,801 0/1:25,16:41:99:297,0,745 0/1:25,28:53:99:493,0,685
968
+ 1 814710 . G A 1720.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-2.705;DP=198;Dels=0.00;FS=73.650;HaplotypeScore=4.9095;MLEAC=4;MLEAF=0.500;MQ=51.79;MQ0=0;MQRankSum=-10.785;QD=8.69;ReadPosRankSum=0.065 GT:AD:DP:GQ:PL 0/1:29,25:54:99:547,0,817 0/1:29,22:51:99:438,0,822 0/1:30,13:43:99:280,0,893 0/1:27,23:50:99:488,0,769
969
+ 1 814731 . T C 988.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.515;DP=184;Dels=0.00;FS=70.581;HaplotypeScore=2.2664;MLEAC=4;MLEAF=0.500;MQ=53.63;MQ0=0;MQRankSum=-10.410;QD=5.37;ReadPosRankSum=-1.911 GT:AD:DP:GQ:PL 0/1:30,17:47:99:335,0,904 0/1:37,14:51:99:283,0,1094 0/1:34,9:43:99:144,0,992 0/1:28,15:43:99:259,0,821
970
+ 1 814742 . C G 481.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.033;DP=167;Dels=0.00;FS=65.314;HaplotypeScore=1.5026;MLEAC=4;MLEAF=0.500;MQ=54.89;MQ0=0;MQRankSum=-9.179;QD=2.89;ReadPosRankSum=-2.773 GT:AD:DP:GQ:PL 0/1:33,12:45:99:197,0,984 0/1:34,9:43:99:138,0,998 0/1:35,8:43:99:108,0,1035 0/1:29,7:36:71:71,0,811
971
+ 1 815181 . G T 39.91 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-1.760;DP=186;Dels=0.00;FS=30.376;HaplotypeScore=3.5218;MLEAC=2;MLEAF=0.250;MQ=54.09;MQ0=5;MQRankSum=-8.136;QD=0.36;ReadPosRankSum=2.016 GT:AD:DP:GQ:PL 0/0:22,2:24:63:0,63,743 0/1:46,14:60:45:45,0,1368 0/1:41,11:52:29:29,0,1215 0/0:45,5:50:38:0,38,1368
972
+ 1 815197 . T C 41.91 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-5.342;DP=179;Dels=0.00;FS=29.810;HaplotypeScore=1.3510;MLEAC=2;MLEAF=0.250;MQ=53.95;MQ0=5;MQRankSum=-8.111;QD=0.39;ReadPosRankSum=5.186 GT:AD:DP:GQ:PL 0/0:23,2:25:63:0,63,739 0/1:45,12:57:45:45,0,1348 0/1:40,10:50:31:31,0,1224 0/0:42,5:47:36:0,36,1265
973
+ 1 815277 . T C 56.53 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.034;DP=170;Dels=0.00;FS=12.024;HaplotypeScore=5.0587;MLEAC=3;MLEAF=0.375;MQ=49.33;MQ0=8;MQRankSum=-5.425;QD=0.41;ReadPosRankSum=-2.683 GT:AD:DP:GQ:PL 0/0:30,3:33:11:0,11,805 0/1:39,8:47:41:41,0,1114 0/1:39,7:46:33:33,0,1123 0/1:38,6:44:16:16,0,1065
974
+ 1 815337 . G T 295.96 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-1.037;DP=185;Dels=0.00;FS=20.230;HaplotypeScore=4.3260;MLEAC=4;MLEAF=0.500;MQ=43.12;MQ0=16;MQRankSum=-5.716;QD=1.60;ReadPosRankSum=0.588 GT:AD:DP:GQ:PL 0/1:30,8:38:24:24,0,748 0/1:38,12:50:87:87,0,993 0/1:32,10:42:99:123,0,886 0/1:45,9:54:94:94,0,1216
975
+ 1 815373 . C T 41.52 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-1.125;DP=156;Dels=0.00;FS=33.434;HaplotypeScore=2.1193;MLEAC=2;MLEAF=0.250;MQ=48.98;MQ0=14;MQRankSum=-7.522;QD=0.50;ReadPosRankSum=-1.252 GT:AD:DP:GQ:PL 0/1:29,9:39:6:6,0,836 0/0:27,15:42:55:0,55,877 0/0:24,7:31:20:0,20,787 0/1:36,7:43:68:68,0,1079
976
+ 1 815463 . T C 715.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.145;DP=203;Dels=0.00;FS=8.878;HaplotypeScore=9.1764;MLEAC=4;MLEAF=0.500;MQ=44.29;MQ0=11;MQRankSum=-10.931;QD=3.53;ReadPosRankSum=-2.334 GT:AD:DP:GQ:PL 0/1:23,12:35:79:79,0,686 0/1:38,25:63:99:279,0,1006 0/1:35,21:56:99:173,0,990 0/1:28,21:49:99:217,0,768
977
+ 1 815469 . G T 194.10 PASS AC=2;AF=0.250;AN=8;BaseQRankSum=1.114;DP=223;Dels=0.00;FS=9.672;HaplotypeScore=11.8201;MLEAC=2;MLEAF=0.250;MQ=44.38;MQ0=10;MQRankSum=-5.697;QD=1.55;ReadPosRankSum=-1.250 GT:AD:DP:GQ:PL 0/0:34,4:38:55:0,55,967 0/1:56,11:67:71:71,0,1316 0/0:51,9:60:5:0,5,1194 0/1:45,13:58:99:156,0,1095
978
+ 1 815497 . A G 1945.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=2.694;DP=282;Dels=0.00;FS=33.913;HaplotypeScore=5.1705;MLEAC=4;MLEAF=0.500;MQ=43.86;MQ0=6;MQRankSum=-10.870;QD=6.90;ReadPosRankSum=2.613 GT:AD:DP:GQ:PL 0/1:29,21:50:99:351,0,731 0/1:46,39:86:99:563,0,1221 0/1:35,33:68:99:437,0,951 0/1:40,37:77:99:627,0,1002
979
+ 1 815520 . C T 3095.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.941;DP=305;Dels=0.00;FS=4.101;HaplotypeScore=12.2350;MLEAC=4;MLEAF=0.500;MQ=43.53;MQ0=7;MQRankSum=-13.985;QD=10.15;ReadPosRankSum=1.418 GT:AD:DP:GQ:PL 0/1:23,35:58:99:539,0,599 0/1:26,56:82:99:909,0,698 0/1:33,39:72:99:613,0,983 0/1:30,61:91:99:1067,0,783
980
+ 1 815573 . C T 1621.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.819;DP=249;Dels=0.00;FS=4.524;HaplotypeScore=5.3895;MLEAC=4;MLEAF=0.500;MQ=46.21;MQ0=15;MQRankSum=-13.173;QD=6.51;ReadPosRankSum=1.228 GT:AD:DP:GQ:PL 0/1:25,26:51:99:346,0,706 0/1:30,37:67:99:469,0,860 0/1:24,27:52:99:336,0,674 0/1:40,39:79:99:503,0,1180
981
+ 1 815601 . T C 405.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=1.013;DP=187;Dels=0.01;FS=10.669;HaplotypeScore=5.9834;MLEAC=4;MLEAF=0.500;MQ=49.19;MQ0=15;MQRankSum=-9.435;QD=2.17;ReadPosRankSum=-4.126 GT:AD:DP:GQ:PL 0/1:22,12:34:91:91,0,615 0/1:38,19:57:99:120,0,1135 0/1:30,12:42:92:92,0,880 0/1:34,18:52:99:135,0,942
982
+ 1 815611 . C T 124.99 PASS AC=2;AF=0.250;AN=8;BaseQRankSum=4.360;DP=156;Dels=0.00;FS=0.000;HaplotypeScore=6.6208;MLEAC=2;MLEAF=0.250;MQ=50.85;MQ0=15;MQRankSum=-8.557;QD=1.58;ReadPosRankSum=-4.134 GT:AD:DP:GQ:PL 0/1:19,10:29:34:34,0,515 0/1:32,18:50:99:125,0,849 0/0:27,9:36:17:0,17,729 0/0:30,11:41:37:0,37,829
983
+ 1 815662 . G T 3559.35 PASS AC=8;AF=1.00;AN=8;DP=107;Dels=0.00;FS=0.000;HaplotypeScore=0.3281;MLEAC=8;MLEAF=1.00;MQ=59.72;MQ0=1;QD=33.26 GT:AD:DP:GQ:PL 1/1:1,23:24:69:823,69,0 1/1:0,31:31:90:993,90,0 1/1:0,31:31:90:1060,90,0 1/1:0,21:21:63:709,63,0
984
+ 1 815681 . G T 3060.36 PASS AC=8;AF=1.00;AN=8;BaseQRankSum=0.577;DP=98;Dels=0.00;FS=0.000;HaplotypeScore=1.1047;MLEAC=8;MLEAF=1.00;MQ=59.39;MQ0=1;MQRankSum=-1.155;QD=31.23;ReadPosRankSum=-0.541 GT:AD:DP:GQ:PL 1/1:2,20:22:31:649,31,0 1/1:0,28:28:81:886,81,0 1/1:0,33:33:96:1090,96,0 1/1:0,14:14:42:461,42,0
985
+ 1 815728 . A G 660.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-3.681;DP=166;Dels=0.00;FS=76.748;HaplotypeScore=6.2820;MLEAC=4;MLEAF=0.500;MQ=53.33;MQ0=3;MQRankSum=-9.553;QD=3.98;ReadPosRankSum=6.864 GT:AD:DP:GQ:PL 0/1:29,8:37:99:132,0,775 0/1:33,15:48:99:221,0,939 0/1:33,9:42:99:116,0,988 0/1:23,15:38:99:224,0,669
986
+ 1 815757 . G A 905.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=3.561;DP=194;Dels=0.00;FS=89.480;HaplotypeScore=2.1639;MLEAC=4;MLEAF=0.500;MQ=51.26;MQ0=4;MQRankSum=-10.882;QD=4.67;ReadPosRankSum=-2.373 GT:AD:DP:GQ:PL 0/1:32,13:45:99:228,0,915 0/1:31,21:52:99:317,0,879 0/1:39,10:49:62:62,0,1222 0/1:26,22:48:99:331,0,727
987
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988
+ 1 815804 . T G 898.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.320;DP=188;Dels=0.00;FS=64.867;HaplotypeScore=1.3209;MLEAC=4;MLEAF=0.500;MQ=50.19;MQ0=6;MQRankSum=-11.126;QD=4.78;ReadPosRankSum=3.697 GT:AD:DP:GQ:PL 0/1:30,12:42:99:142,0,845 0/1:27,20:47:99:315,0,773 0/1:35,13:48:99:102,0,962 0/1:25,26:51:99:372,0,698
989
+ 1 815815 . A T 948.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-2.028;DP=202;Dels=0.00;FS=67.118;HaplotypeScore=2.5257;MLEAC=4;MLEAF=0.500;MQ=48.60;MQ0=8;MQRankSum=-11.720;QD=4.70;ReadPosRankSum=3.304 GT:AD:DP:GQ:PL 0/1:29,16:45:99:188,0,841 0/1:25,23:48:99:324,0,734 0/1:35,16:51:99:101,0,1049 0/1:28,30:58:99:368,0,823
990
+ 1 815853 . A G 287.95 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-6.535;DP=148;Dels=0.00;FS=58.139;HaplotypeScore=0.7231;MLEAC=4;MLEAF=0.500;MQ=50.15;MQ0=5;MQRankSum=-9.376;QD=1.95;ReadPosRankSum=3.628 GT:AD:DP:GQ:PL 0/1:21,7:28:31:31,0,626 0/1:21,11:32:85:85,0,654 0/1:30,14:44:74:74,0,940 0/1:29,15:44:99:130,0,882
991
+ 1 815857 . C T 254.95 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-2.273;DP=141;Dels=0.00;FS=57.911;HaplotypeScore=0.4864;MLEAC=4;MLEAF=0.500;MQ=50.04;MQ0=4;MQRankSum=-9.075;QD=1.81;ReadPosRankSum=3.790 GT:AD:DP:GQ:PL 0/1:21,7:28:29:29,0,645 0/1:21,9:30:58:58,0,637 0/1:28,14:42:92:92,0,860 0/1:28,13:41:99:108,0,815
992
+ 1 815873 . G T 61.32 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=-2.332;DP=140;Dels=0.00;FS=42.926;HaplotypeScore=2.2135;MLEAC=3;MLEAF=0.375;MQ=49.26;MQ0=3;MQRankSum=-8.341;QD=0.55;ReadPosRankSum=0.226 GT:AD:DP:GQ:PL 0/0:23,5:28:4:0,4,681 0/1:20,8:28:34:34,0,615 0/1:31,13:44:54:54,0,931 0/1:31,9:40:4:4,0,941
993
+ 1 816636 . G A 72.90 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=4.261;DP=159;Dels=0.00;FS=29.630;HaplotypeScore=2.6390;MLEAC=2;MLEAF=0.250;MQ=49.00;MQ0=12;MQRankSum=-6.916;QD=0.95;ReadPosRankSum=0.730 GT:AD:DP:GQ:PL 0/1:24,6:32:58:58,0,464 0/0:36,6:42:61:0,61,854 0/0:33,7:40:35:0,35,879 0/1:29,16:45:49:49,0,657
994
+ 1 816638 . T C 68.91 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=1.456;DP=156;Dels=0.00;FS=28.839;HaplotypeScore=2.3893;MLEAC=2;MLEAF=0.250;MQ=48.77;MQ0=12;MQRankSum=-6.953;QD=0.91;ReadPosRankSum=0.906 GT:AD:DP:GQ:PL 0/1:26,6:32:50:50,0,559 0/0:36,5:41:59:0,59,896 0/0:32,7:39:29:0,29,935 0/1:28,16:44:53:53,0,721
995
+ 1 816642 . T C 65.90 LowQD AC=2;AF=0.250;AN=8;BaseQRankSum=-4.495;DP=156;Dels=0.00;FS=28.269;HaplotypeScore=2.4256;MLEAC=2;MLEAF=0.250;MQ=48.50;MQ0=13;MQRankSum=-6.830;QD=0.88;ReadPosRankSum=1.656 GT:AD:DP:GQ:PL 0/1:25,6:31:49:49,0,645 0/0:33,6:39:50:0,50,812 0/0:35,7:42:38:0,38,1040 0/1:28,16:44:51:51,0,723
996
+ 1 816680 . G T 188.57 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=7.670;DP=159;Dels=0.00;FS=14.659;HaplotypeScore=14.9001;MLEAC=3;MLEAF=0.375;MQ=44.95;MQ0=15;MQRankSum=-9.145;QD=1.19;ReadPosRankSum=-0.682 GT:AD:DP:GQ:PL 0/1:13,9:26:53:53,0,329 0/1:27,18:49:61:61,0,656 0/1:24,14:43:99:143,0,664 0/1:17,15:41:12:12,0,417
997
+ 1 816682 . G A 527.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.110;DP=171;Dels=0.00;FS=35.421;HaplotypeScore=16.8926;MLEAC=4;MLEAF=0.500;MQ=44.47;MQ0=14;MQRankSum=-9.751;QD=3.09;ReadPosRankSum=0.034 GT:AD:DP:GQ:PL 0/1:15,12:27:99:143,0,411 0/1:29,20:49:68:68,0,865 0/1:29,15:45:99:124,0,825 0/1:21,29:50:99:225,0,569
998
+ 1 816689 . T C 32.05 LowQD;LowQual AC=2;AF=0.250;AN=8;BaseQRankSum=-2.735;DP=212;Dels=0.00;FS=6.264;HaplotypeScore=30.9612;MLEAC=2;MLEAF=0.250;MQ=43.36;MQ0=14;MQRankSum=-2.554;QD=0.26;ReadPosRankSum=-0.661 GT:AD:DP:GQ:PL 0/0:35,2:37:55:0,55,936 0/1:53,7:60:18:18,0,1140 0/0:46,5:51:23:0,23,1209 0/1:57,7:64:48:48,0,1144
999
+ 1 816696 . G T 206.20 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.290;DP=232;Dels=0.00;FS=0.923;HaplotypeScore=16.5729;MLEAC=4;MLEAF=0.500;MQ=42.94;MQ0=17;MQRankSum=-5.087;QD=0.89;ReadPosRankSum=-1.664 GT:AD:DP:GQ:PL 0/1:32,10:43:99:128,0,700 0/1:52,14:66:10:10,0,1275 0/1:50,6:56:4:4,0,1182 0/1:52,15:67:95:95,0,1103
1000
+ 1 816697 . A T 268.95 LowQD AC=4;AF=0.500;AN=8;BaseQRankSum=-1.338;DP=232;Dels=0.00;FS=23.133;HaplotypeScore=16.5729;MLEAC=4;MLEAF=0.500;MQ=42.76;MQ0=18;MQRankSum=-4.068;QD=1.16;ReadPosRankSum=-0.146 GT:AD:DP:GQ:PL 0/1:37,6:43:34:34,0,821 0/1:58,8:66:58:58,0,1221 0/1:45,11:56:92:92,0,1052 0/1:54,13:67:99:117,0,1075