bio-vcf 0.8.0 → 0.9.4

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Files changed (85) hide show
  1. checksums.yaml +5 -5
  2. data/.travis.yml +1 -11
  3. data/Gemfile +4 -5
  4. data/Gemfile.lock +28 -65
  5. data/LICENSE.txt +1 -1
  6. data/README.md +387 -107
  7. data/RELEASE_NOTES.md +20 -0
  8. data/RELEASE_NOTES.md~ +11 -0
  9. data/Rakefile +3 -40
  10. data/TAGS +115 -0
  11. data/VERSION +1 -1
  12. data/bin/bio-vcf +176 -109
  13. data/bio-vcf.gemspec +14 -70
  14. data/features/cli.feature +22 -4
  15. data/features/diff_count.feature +0 -1
  16. data/features/filter.feature +12 -0
  17. data/features/multisample.feature +25 -0
  18. data/features/somaticsniper.feature +2 -0
  19. data/features/step_definitions/cli-feature.rb +15 -6
  20. data/features/step_definitions/diff_count.rb +1 -1
  21. data/features/step_definitions/multisample.rb +19 -0
  22. data/features/step_definitions/somaticsniper.rb +9 -1
  23. data/features/step_definitions/vcf_header.rb +48 -0
  24. data/features/support/env.rb +0 -9
  25. data/features/vcf_header.feature +35 -0
  26. data/lib/bio-vcf.rb +2 -0
  27. data/lib/bio-vcf/bedfilter.rb +43 -0
  28. data/lib/bio-vcf/pcows.rb +303 -0
  29. data/lib/bio-vcf/template.rb +75 -0
  30. data/lib/bio-vcf/vcffile.rb +46 -0
  31. data/lib/bio-vcf/vcfgenotypefield.rb +25 -20
  32. data/lib/bio-vcf/vcfheader.rb +146 -6
  33. data/lib/bio-vcf/vcfheader_line.rb +778 -0
  34. data/lib/bio-vcf/vcfrecord.rb +56 -18
  35. data/lib/bio-vcf/vcfsample.rb +27 -3
  36. data/ragel/gen_vcfheaderline_parser.rl +165 -0
  37. data/ragel/generate.sh +8 -0
  38. data/template/vcf2json.erb +19 -7
  39. data/template/vcf2json_full_header.erb +22 -0
  40. data/template/vcf2json_use_meta.erb +41 -0
  41. data/template/vcf2rdf_header.erb +24 -0
  42. data/test/data/input/empty.vcf +2 -0
  43. data/test/data/input/gatk_exome.vcf +237 -0
  44. data/test/data/input/gatk_wgs.vcf +1000 -0
  45. data/test/data/input/test.bed +632 -0
  46. data/test/data/regression/empty-stderr.new +12 -0
  47. data/test/data/regression/empty.new +2 -0
  48. data/test/data/regression/empty.ref +2 -0
  49. data/test/data/regression/eval_once-stderr.new +2 -0
  50. data/test/data/regression/eval_once.new +1 -0
  51. data/test/data/regression/eval_once.ref +1 -0
  52. data/test/data/regression/eval_r.info.dp-stderr.new +10 -0
  53. data/test/data/regression/eval_r.info.dp.new +150 -0
  54. data/test/data/regression/ifilter_s.dp-stderr.new +34 -0
  55. data/test/data/regression/ifilter_s.dp.new +31 -0
  56. data/test/data/regression/pass1-stderr.new +10 -0
  57. data/test/data/regression/pass1.new +88 -0
  58. data/test/data/regression/pass1.ref +88 -0
  59. data/test/data/regression/r.info.dp-stderr.new +4 -0
  60. data/test/data/regression/r.info.dp.new +114 -0
  61. data/test/data/regression/rewrite.info.sample-stderr.new +10 -0
  62. data/test/data/regression/rewrite.info.sample.new +150 -0
  63. data/test/data/regression/s.dp-stderr.new +18 -0
  64. data/test/data/regression/s.dp.new +145 -0
  65. data/test/data/regression/seval_s.dp-stderr.new +10 -0
  66. data/test/data/regression/seval_s.dp.new +36 -0
  67. data/test/data/regression/sfilter_seval_s.dp-stderr.new +18 -0
  68. data/test/data/regression/sfilter_seval_s.dp.new +31 -0
  69. data/test/data/regression/thread4-stderr.new +10 -0
  70. data/test/data/regression/thread4.new +150 -0
  71. data/test/data/regression/thread4_4-stderr.new +25 -0
  72. data/test/data/regression/thread4_4.new +130 -0
  73. data/test/data/regression/thread4_4_failed_filter-stderr.new +5 -0
  74. data/test/data/regression/thread4_4_failed_filter-stderr.ref +5 -1
  75. data/test/data/regression/thread4_4_failed_filter.new +110 -0
  76. data/test/data/regression/vcf2json_full_header-stderr.new +10 -0
  77. data/test/data/regression/vcf2json_full_header.new +225 -0
  78. data/test/data/regression/vcf2json_full_header.ref +225 -0
  79. data/test/data/regression/vcf2json_use_meta-stderr.new +10 -0
  80. data/test/data/regression/vcf2json_use_meta.new +4697 -0
  81. data/test/data/regression/vcf2json_use_meta.ref +4697 -0
  82. data/test/performance/metrics.md +18 -1
  83. data/test/stress/stress_test.sh +15 -0
  84. data/test/tmp/test.vcf +12469 -0
  85. metadata +65 -64
data/template/vcf2rdf_header.erb ADDED
@@ -0,0 +1,24 @@
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+ =HEADER
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+ @prefix rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
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+ @prefix rdfs: <http://www.w3.org/2000/01/rdf-schema#> .
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+ @prefix dc: <http://purl.org/dc/elements/1.1/> .
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+ @prefix hgnc: <http://identifiers.org/hgnc.symbol/> .
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+ @prefix doi: <http://dx.doi.org/> .
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+ @prefix seq: <http://biobeat.org/rdf/seq#> .
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+ @prefix db: <http://biobeat.org/rdf/db#> .
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+ @prefix : <http://biobeat.org/rdf/dbsnp#> .
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+
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+ =BODY
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+ <%
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+ id = Turtle::mangle_identifier(['ch'+rec.chrom,rec.pos,rec.alt.join('')].join('_'))
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+ %>
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+ :<%= id %>
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+ :query_id "<%= id %>";
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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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+ seq:dp <%= rec.info.dp %> ;
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+ db:vcf true .
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+
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+ =FOOTER
data/test/data/input/empty.vcf ADDED
@@ -0,0 +1,2 @@
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+ ##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 @@
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+ ##fileformat=VCFv4.1
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+ ##FILTER=<ID=HaplotypeScoreHigh,Description="HaplotypeScore > 13.0">
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+ ##FILTER=<ID=LowQual,Description="Low quality">
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+ ##FILTER=<ID=LowQualityDepth,Description="QD < 2.0">
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+ ##FILTER=<ID=MQRankSumLow,Description="MQRankSum < -12.5">
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+ ##FILTER=<ID=MappingQuality,Description="MQ < 40.0">
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+ ##FILTER=<ID=ReadPosRankSumLow,Description="ReadPosRankSum < -20.0">
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+ ##FILTER=<ID=SnpCluster,Description="SNPs found in clusters">
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+ ##FILTER=<ID=StrandBias,Description="FS > 200.0">
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+ ##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
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+ ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
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+ ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
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+ ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
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+ ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
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+ ##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
+ 1 60466840 rs35944236 TA T 18.20 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=9.10;set=FilteredInAll GT:AD:DP:GQ:PL ./. 1/1:0,2:2:6:53,6,0
67
+ 1 62516683 rs2498982 G C 114.46 PASS AC=2;AF=1.00;AN=2;DB;DP=8;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=28.62;set=Intersection GT:AD:DP:GQ:PL ./. 1/1:0,4:4:12:141,12,0
68
+ 1 66058513 rs1137101 A G 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
69
+ 1 95709821 rs259358 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
70
+ 1 109806834 rs6698843 C T 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 ./.
71
+ 1 114354942 rs3789604 T 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
72
+ 1 144873962 rs11341221 CT C 46.13 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.52;MQ0=0;QD=23.07;set=Intersection GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0 ./.
73
+ 1 151733335 rs8480 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 ./.
74
+ 1 157516779 . 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
75
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+ 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
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+ 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
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15
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18
+ ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered">
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+ ##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?">
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21
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24
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+ ##contig=<ID=GL000220.1,length=161802,assembly=b37>
100
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101
+ ##contig=<ID=GL000211.1,length=166566,assembly=b37>
102
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103
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104
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105
+ ##contig=<ID=GL000215.1,length=172545,assembly=b37>
106
+ ##contig=<ID=GL000205.1,length=174588,assembly=b37>
107
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108
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109
+ ##contig=<ID=GL000223.1,length=180455,assembly=b37>
110
+ ##contig=<ID=GL000195.1,length=182896,assembly=b37>
111
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112
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113
+ ##contig=<ID=GL000200.1,length=187035,assembly=b37>
114
+ ##contig=<ID=GL000193.1,length=189789,assembly=b37>
115
+ ##contig=<ID=GL000194.1,length=191469,assembly=b37>
116
+ ##contig=<ID=GL000225.1,length=211173,assembly=b37>
117
+ ##contig=<ID=GL000192.1,length=547496,assembly=b37>
118
+ ##reference=file:///data_fedor13/common_data/references/H_sapiens/GATK_b37_bundle_reference/basespace/human_g1k_v37.fasta
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
+ 1 749856 . C T 1166.92 HARD_TO_VALIDATE AC=7;AF=0.875;AN=8;BaseQRankSum=4.360;DP=85;Dels=0.00;FS=8.614;HaplotypeScore=0.2290;MLEAC=7;MLEAF=0.875;MQ=24.04;MQ0=18;MQRankSum=2.233;QD=13.73;ReadPosRankSum=0.976 GT:AD:DP:GQ:PL 1/1:4,20:24:33:367,33,0 1/1:2,17:19:12:330,12,0 1/1:4,17:21:8:321,8,0 0/1:4,17:21:26:180,0,26
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
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763
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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
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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
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768
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769
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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
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773
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774
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775
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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
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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
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782
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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
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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
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788
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789
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790
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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
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793
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794
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795
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796
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797
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798
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799
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800
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801
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802
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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
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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
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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
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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
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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
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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
+ 1 796848 . A T 1053.95 HARD_TO_VALIDATE AC=4;AF=0.500;AN=8;BaseQRankSum=2.960;DP=183;Dels=0.00;FS=8.603;HaplotypeScore=1.5181;MLEAC=4;MLEAF=0.500;MQ=33.58;MQ0=36;MQRankSum=0.040;QD=5.76;ReadPosRankSum=-0.579 GT:AD:DP:GQ:PL 0/1:30,19:49:99:375,0,567 0/1:40,5:45:33:33,0,832 0/1:30,12:42:99:229,0,741 0/1:29,18:47:99:449,0,620
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
+ 1 802124 . G A 43.41 HARD_TO_VALIDATE;LowQD;LowQual AC=3;AF=0.375;AN=8;BaseQRankSum=3.140;DP=220;Dels=0.00;FS=45.830;HaplotypeScore=3.5470;MLEAC=3;MLEAF=0.375;MQ=18.55;MQ0=30;MQRankSum=0.303;QD=0.26;ReadPosRankSum=-0.446 GT:AD:DP:GQ:PL 0/1:60,8:69:16:16,0,465 0/0:48,5:54:13:0,13,418 0/1:36,4:41:18:18,0,347 0/1:43,9:56:43:43,0,359
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
+ 1 802320 . G A 2466.31 HARD_TO_VALIDATE AC=6;AF=0.750;AN=8;BaseQRankSum=4.747;DP=235;Dels=0.00;FS=35.854;HaplotypeScore=4.1652;MLEAC=7;MLEAF=0.875;MQ=30.48;MQ0=29;MQRankSum=6.253;QD=10.49;ReadPosRankSum=2.529 GT:AD:DP:GQ:PL 0/1:26,46:75:99:652,0,116 1/1:19,41:61:17:878,17,0 1/1:21,29:51:15:563,15,0 0/1:19,26:47:2:404,0,2
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
+ 1 813317 . C A 1235.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=9.422;DP=251;Dels=0.00;FS=9.869;HaplotypeScore=5.6966;MLEAC=4;MLEAF=0.500;MQ=47.52;MQ0=12;MQRankSum=-12.380;QD=4.92;ReadPosRankSum=4.290 GT:AD:DP:GQ:PL 0/1:43,28:71:99:283,0,1176 0/1:39,23:62:99:234,0,1025 0/1:36,20:56:99:281,0,964 0/1:34,28:62:99:470,0,837
924
+ 1 813331 . G T 1138.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-2.107;DP=256;Dels=0.00;FS=15.400;HaplotypeScore=1.4721;MLEAC=4;MLEAF=0.500;MQ=45.70;MQ0=16;MQRankSum=-12.282;QD=4.45;ReadPosRankSum=3.194 GT:AD:DP:GQ:PL 0/1:39,30:69:99:285,0,1153 0/1:45,21:66:99:185,0,1293 0/1:36,20:56:99:246,0,1097 0/1:35,30:65:99:455,0,1008
925
+ 1 813340 . G A 788.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=0.110;DP=241;Dels=0.00;FS=7.111;HaplotypeScore=1.1497;MLEAC=4;MLEAF=0.500;MQ=46.19;MQ0=12;MQRankSum=-11.546;QD=3.27;ReadPosRankSum=3.225 GT:AD:DP:GQ:PL 0/1:39,24:63:99:173,0,1131 0/1:43,19:62:99:171,0,1213 0/1:40,15:55:99:163,0,1229 0/1:37,24:61:99:314,0,1040
926
+ 1 813341 . C T 827.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-0.620;DP=242;Dels=0.00;FS=7.016;HaplotypeScore=1.1497;MLEAC=4;MLEAF=0.500;MQ=46.10;MQ0=11;MQRankSum=-11.268;QD=3.42;ReadPosRankSum=3.099 GT:AD:DP:GQ:PL 0/1:41,23:64:99:171,0,1183 0/1:42,19:61:99:175,0,1198 0/1:41,15:56:99:165,0,1241 0/1:36,25:61:99:349,0,1056
927
+ 1 813342 . A G 819.94 PASS AC=4;AF=0.500;AN=8;BaseQRankSum=-2.358;DP=241;Dels=0.00;FS=8.133;HaplotypeScore=1.3993;MLEAC=4;MLEAF=0.500;MQ=45.80;MQ0=11;MQRankSum=-11.425;QD=3.40;ReadPosRankSum=2.495 GT:AD:DP:GQ:PL 0/1:39,24:63:99:169,0,1179 0/1:42,19:61:99:172,0,1238 0/1:40,15:55:99:167,0,1246 0/1:37,25:62:99:344,0,1051
928
+ 1 813353 . C A 230.21 LowQD AC=3;AF=0.375;AN=8;BaseQRankSum=0.119;DP=257;Dels=0.00;FS=2.681;HaplotypeScore=2.4749;MLEAC=3;MLEAF=0.375;MQ=43.56;MQ0=13;MQRankSum=-6.722;QD=1.18;ReadPosRankSum=-1.259 GT:AD:DP:GQ:PL 0/1:52,11:63:14:14,0,1269 0/1:58,9:67:59:59,0,1414 0/0:56,6:62:17:0,17,1535 0/1:50,15:65:99:191,0,1244
929
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930
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933
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937
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938
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940
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942
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945
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948
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949
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957
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959
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960
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961
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962
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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
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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