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sample.vcf
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2132 lines (2132 loc) · 463 KB
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##fileformat=VCFv4.1
##FILTER=<ID=LowQual,Description="Low quality">
##FILTER=<ID=VQSRTrancheINDEL99.00to99.90,Description="Truth sensitivity tranche level for INDEL model at VQS Lod: -2.4085 <= x < 0.0794">
##FILTER=<ID=VQSRTrancheINDEL99.90to100.00+,Description="Truth sensitivity tranche level for INDEL model at VQS Lod < -1678.3953">
##FILTER=<ID=VQSRTrancheINDEL99.90to100.00,Description="Truth sensitivity tranche level for INDEL model at VQS Lod: -1678.3953 <= x < -2.4085">
##FILTER=<ID=VQSRTrancheSNP99.00to99.90,Description="Truth sensitivity tranche level for SNP model at VQS Lod: -1.501 <= x < 0.319">
##FILTER=<ID=VQSRTrancheSNP99.90to100.00+,Description="Truth sensitivity tranche level for SNP model at VQS Lod < -1474.3646">
##FILTER=<ID=VQSRTrancheSNP99.90to100.00,Description="Truth sensitivity tranche level for SNP model at VQS Lod: -1474.3646 <= x < -1.501">
##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype">
##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification">
##GATKCommandLine=<ID=ApplyRecalibration,Version=3.3-0-g37228af,Date="Tue Jun 30 08:48:57 CEST 2015",Epoch=1435646937859,CommandLineOptions="analysis_type=ApplyRecalibration 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=/ref/genomes/hg19/hg19.fa 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 no_cmdline_in_header=false sites_only=false never_trim_vcf_format_field=false bcf=false bam_compression=null simplifyBAM=false disable_bam_indexing=false generate_md5=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 input=[(RodBinding name=input source=gatk/raw.variants.vcf)] recal_file=(RodBinding name=recal_file source=gatk/recalibrate_SNP.recal) tranches_file=gatk/recalibrate_SNP.tranches out=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub ts_filter_level=99.0 lodCutoff=null ignore_filter=null ignore_all_filters=false excludeFiltered=false mode=SNP filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
##GATKCommandLine=<ID=ApplyRecalibration,Version=3.3-0-g37228af,Date="Tue Jun 30 08:49:46 CEST 2015",Epoch=1435646986265,CommandLineOptions="analysis_type=ApplyRecalibration 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=/ref/genomes/hg19/hg19.fa 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 no_cmdline_in_header=false sites_only=false never_trim_vcf_format_field=false bcf=false bam_compression=null simplifyBAM=false disable_bam_indexing=false generate_md5=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 input=[(RodBinding name=input source=gatk/recalibrated_snps_raw_indels.vcf)] recal_file=(RodBinding name=recal_file source=gatk/recalibrate_INDEL.recal) tranches_file=gatk/recalibrate_INDEL.tranches out=org.broadinstitute.gatk.engine.io.stubs.VariantContextWriterStub ts_filter_level=99.0 lodCutoff=null ignore_filter=null ignore_all_filters=false excludeFiltered=false mode=INDEL filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
##GATKCommandLine=<ID=HaplotypeCaller,Version=3.3-0-g37228af,Date="Tue Jun 30 02:53:50 CEST 2015",Epoch=1435625630685,CommandLineOptions="analysis_type=HaplotypeCaller input_file=[bam/recalibrated.bam] showFullBamList=false read_buffer_size=null phone_home=AWS gatk_key=null tag=NA read_filter=[BadCigar] intervals=null excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=/ref/genomes/hg19/hg19.fa 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 no_cmdline_in_header=false sites_only=false never_trim_vcf_format_field=false bcf=false bam_compression=null simplifyBAM=false disable_bam_indexing=false generate_md5=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 likelihoodCalculationEngine=PairHMM heterogeneousKmerSizeResolution=COMBO_MIN graphOutput=null bamOutput=null bamWriterType=CALLED_HAPLOTYPES disableOptimizations=false dbsnp=(RodBinding name=dbsnp source=/ref/genomes/hg19/broad/dbsnp_138.hg19.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=10.0 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=null exactcallslog=null output_mode=EMIT_VARIANTS_ONLY allSitePLs=false sample_name=null kmerSize=[10, 25] dontIncreaseKmerSizesForCycles=false allowNonUniqueKmersInRef=false numPruningSamples=1 recoverDanglingHeads=false doNotRecoverDanglingBranches=false minDanglingBranchLength=4 consensus=false GVCFGQBands=[1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 70, 80, 90, 99] indelSizeToEliminateInRefModel=10 min_base_quality_score=10 minPruning=2 gcpHMM=10 includeUmappedReads=false useAllelesTrigger=false phredScaledGlobalReadMismappingRate=45 maxNumHaplotypesInPopulation=128 mergeVariantsViaLD=false doNotRunPhysicalPhasing=true 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 maxReadsInRegionPerSample=1000 minReadsPerAlignmentStart=5 activityProfileOut=null activeRegionOut=null activeRegionIn=null activeRegionExtension=null forceActive=false activeRegionMaxSize=null bandPassSigma=null maxProbPropagationDistance=50 activeProbabilityThreshold=0.002 min_mapping_quality_score=20 filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false">
##INFO=<ID=AC,Number=A,Type=Integer,Description="Allele count in genotypes, for each ALT allele, in the same order as listed">
##INFO=<ID=AF,Number=A,Type=Float,Description="Allele Frequency, for each ALT allele, in the same order as listed">
##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes">
##INFO=<ID=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities">
##INFO=<ID=ClippingRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref number of hard clipped bases">
##INFO=<ID=DB,Number=0,Type=Flag,Description="dbSNP Membership">
##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered">
##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?">
##INFO=<ID=END,Number=1,Type=Integer,Description="Stop position of the interval">
##INFO=<ID=FS,Number=1,Type=Float,Description="Phred-scaled p-value using Fisher's exact test to detect strand bias">
##INFO=<ID=HaplotypeScore,Number=1,Type=Float,Description="Consistency of the site with at most two segregating haplotypes">
##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">
##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">
##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">
##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality">
##INFO=<ID=MQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads">
##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities">
##INFO=<ID=NEGATIVE_TRAIN_SITE,Number=0,Type=Flag,Description="This variant was used to build the negative training set of bad variants">
##INFO=<ID=POSITIVE_TRAIN_SITE,Number=0,Type=Flag,Description="This variant was used to build the positive training set of good variants">
##INFO=<ID=QD,Number=1,Type=Float,Description="Variant Confidence/Quality by Depth">
##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias">
##INFO=<ID=SOR,Number=1,Type=Float,Description="Symmetric Odds Ratio of 2x2 contingency table to detect strand bias">
##INFO=<ID=VQSLOD,Number=1,Type=Float,Description="Log odds ratio of being a true variant versus being false under the trained gaussian mixture model">
##INFO=<ID=culprit,Number=1,Type=String,Description="The annotation which was the worst performing in the Gaussian mixture model, likely the reason why the variant was filtered out">
##contig=<ID=chrM,length=16571,assembly=hg19>
##contig=<ID=chr1,length=249250621,assembly=hg19>
##contig=<ID=chr2,length=243199373,assembly=hg19>
##contig=<ID=chr3,length=198022430,assembly=hg19>
##contig=<ID=chr4,length=191154276,assembly=hg19>
##contig=<ID=chr5,length=180915260,assembly=hg19>
##contig=<ID=chr6,length=171115067,assembly=hg19>
##contig=<ID=chr7,length=159138663,assembly=hg19>
##contig=<ID=chr8,length=146364022,assembly=hg19>
##contig=<ID=chr9,length=141213431,assembly=hg19>
##contig=<ID=chr10,length=135534747,assembly=hg19>
##contig=<ID=chr11,length=135006516,assembly=hg19>
##contig=<ID=chr12,length=133851895,assembly=hg19>
##contig=<ID=chr13,length=115169878,assembly=hg19>
##contig=<ID=chr14,length=107349540,assembly=hg19>
##contig=<ID=chr15,length=102531392,assembly=hg19>
##contig=<ID=chr16,length=90354753,assembly=hg19>
##contig=<ID=chr17,length=81195210,assembly=hg19>
##contig=<ID=chr18,length=78077248,assembly=hg19>
##contig=<ID=chr19,length=59128983,assembly=hg19>
##contig=<ID=chr20,length=63025520,assembly=hg19>
##contig=<ID=chr21,length=48129895,assembly=hg19>
##contig=<ID=chr22,length=51304566,assembly=hg19>
##contig=<ID=chrX,length=155270560,assembly=hg19>
##contig=<ID=chrY,length=59373566,assembly=hg19>
##contig=<ID=chr1_gl000191_random,length=106433,assembly=hg19>
##contig=<ID=chr1_gl000192_random,length=547496,assembly=hg19>
##contig=<ID=chr4_ctg9_hap1,length=590426,assembly=hg19>
##contig=<ID=chr4_gl000193_random,length=189789,assembly=hg19>
##contig=<ID=chr4_gl000194_random,length=191469,assembly=hg19>
##contig=<ID=chr6_apd_hap1,length=4622290,assembly=hg19>
##contig=<ID=chr6_cox_hap2,length=4795371,assembly=hg19>
##contig=<ID=chr6_dbb_hap3,length=4610396,assembly=hg19>
##contig=<ID=chr6_mann_hap4,length=4683263,assembly=hg19>
##contig=<ID=chr6_mcf_hap5,length=4833398,assembly=hg19>
##contig=<ID=chr6_qbl_hap6,length=4611984,assembly=hg19>
##contig=<ID=chr6_ssto_hap7,length=4928567,assembly=hg19>
##contig=<ID=chr7_gl000195_random,length=182896,assembly=hg19>
##contig=<ID=chr8_gl000196_random,length=38914,assembly=hg19>
##contig=<ID=chr8_gl000197_random,length=37175,assembly=hg19>
##contig=<ID=chr9_gl000198_random,length=90085,assembly=hg19>
##contig=<ID=chr9_gl000199_random,length=169874,assembly=hg19>
##contig=<ID=chr9_gl000200_random,length=187035,assembly=hg19>
##contig=<ID=chr9_gl000201_random,length=36148,assembly=hg19>
##contig=<ID=chr11_gl000202_random,length=40103,assembly=hg19>
##contig=<ID=chr17_ctg5_hap1,length=1680828,assembly=hg19>
##contig=<ID=chr17_gl000203_random,length=37498,assembly=hg19>
##contig=<ID=chr17_gl000204_random,length=81310,assembly=hg19>
##contig=<ID=chr17_gl000205_random,length=174588,assembly=hg19>
##contig=<ID=chr17_gl000206_random,length=41001,assembly=hg19>
##contig=<ID=chr18_gl000207_random,length=4262,assembly=hg19>
##contig=<ID=chr19_gl000208_random,length=92689,assembly=hg19>
##contig=<ID=chr19_gl000209_random,length=159169,assembly=hg19>
##contig=<ID=chr21_gl000210_random,length=27682,assembly=hg19>
##contig=<ID=chrUn_gl000211,length=166566,assembly=hg19>
##contig=<ID=chrUn_gl000212,length=186858,assembly=hg19>
##contig=<ID=chrUn_gl000213,length=164239,assembly=hg19>
##contig=<ID=chrUn_gl000214,length=137718,assembly=hg19>
##contig=<ID=chrUn_gl000215,length=172545,assembly=hg19>
##contig=<ID=chrUn_gl000216,length=172294,assembly=hg19>
##contig=<ID=chrUn_gl000217,length=172149,assembly=hg19>
##contig=<ID=chrUn_gl000218,length=161147,assembly=hg19>
##contig=<ID=chrUn_gl000219,length=179198,assembly=hg19>
##contig=<ID=chrUn_gl000220,length=161802,assembly=hg19>
##contig=<ID=chrUn_gl000221,length=155397,assembly=hg19>
##contig=<ID=chrUn_gl000222,length=186861,assembly=hg19>
##contig=<ID=chrUn_gl000223,length=180455,assembly=hg19>
##contig=<ID=chrUn_gl000224,length=179693,assembly=hg19>
##contig=<ID=chrUn_gl000225,length=211173,assembly=hg19>
##contig=<ID=chrUn_gl000226,length=15008,assembly=hg19>
##contig=<ID=chrUn_gl000227,length=128374,assembly=hg19>
##contig=<ID=chrUn_gl000228,length=129120,assembly=hg19>
##contig=<ID=chrUn_gl000229,length=19913,assembly=hg19>
##contig=<ID=chrUn_gl000230,length=43691,assembly=hg19>
##contig=<ID=chrUn_gl000231,length=27386,assembly=hg19>
##contig=<ID=chrUn_gl000232,length=40652,assembly=hg19>
##contig=<ID=chrUn_gl000233,length=45941,assembly=hg19>
##contig=<ID=chrUn_gl000234,length=40531,assembly=hg19>
##contig=<ID=chrUn_gl000235,length=34474,assembly=hg19>
##contig=<ID=chrUn_gl000236,length=41934,assembly=hg19>
##contig=<ID=chrUn_gl000237,length=45867,assembly=hg19>
##contig=<ID=chrUn_gl000238,length=39939,assembly=hg19>
##contig=<ID=chrUn_gl000239,length=33824,assembly=hg19>
##contig=<ID=chrUn_gl000240,length=41933,assembly=hg19>
##contig=<ID=chrUn_gl000241,length=42152,assembly=hg19>
##contig=<ID=chrUn_gl000242,length=43523,assembly=hg19>
##contig=<ID=chrUn_gl000243,length=43341,assembly=hg19>
##contig=<ID=chrUn_gl000244,length=39929,assembly=hg19>
##contig=<ID=chrUn_gl000245,length=36651,assembly=hg19>
##contig=<ID=chrUn_gl000246,length=38154,assembly=hg19>
##contig=<ID=chrUn_gl000247,length=36422,assembly=hg19>
##contig=<ID=chrUn_gl000248,length=39786,assembly=hg19>
##contig=<ID=chrUn_gl000249,length=38502,assembly=hg19>
##reference=file:///ref/genomes/hg19/hg19.fa
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SRR309291
chr6 44387517 rs6923521 C G 184.84 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.81;SOR=3.912;VQSLOD=6.47;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:18:213,18,0
chr6 44410746 rs61581947 GT G 17.78 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=5.93;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:54,6,0
chr6 44453701 rs60176543 G A 15.65 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=7.83;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:42,3,0
chr6 44505655 rs9296442 G T 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:33:40,0,33
chr6 44526440 rs991234 A C 36.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=18.37;SOR=0.693;VQSLOD=7.54;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:64,6,0
chr6 44532454 rs76750540 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44547060 rs67452991 C T 102.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.51;SOR=0.693;VQSLOD=5.66;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:130,12,0
chr6 44562107 rs491616 G C 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:28:40,0,28
chr6 44575012 rs636287 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44584484 rs634631 A T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44585311 rs648579 T C 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=0.693;VQSLOD=8.91;culprit=DP GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 44586011 rs651831 G C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44586363 rs6913259 C T 171.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.38;SOR=3.611;VQSLOD=6.98;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:200,15,0
chr6 44595393 rs1767788 C T 53.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.87;SOR=0.693;VQSLOD=9.08;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0
chr6 44605066 rs6934182 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44605461 rs4714809 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44629576 rs4257850 A G 60.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.37;SOR=2.303;VQSLOD=9.47;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:88,6,0
chr6 44635852 rs4711794 C A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44640206 rs527082 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44775098 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44780682 rs622923 G T 14.68 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=7.34;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:41,3,0
chr6 44780701 rs559322 C T 15.65 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=7.83;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:42,3,0
chr6 44781313 rs5875893 G GA 15.82 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=3.95;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:52,6,0
chr6 44797271 rs9369514 C A 241.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.54;SOR=2.584;VQSLOD=6.76;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:270,21,0
chr6 44825715 rs9395051 C A 71.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=17.76;SOR=0.693;VQSLOD=7.41;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:99,12,0
chr6 44834094 rs3846896 G A 15.65 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=7.83;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:42,3,0
chr6 44840376 rs1293588 A C 40.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=29.00;MQ0=0;QD=20.37;SOR=2.303;VQSLOD=6.79;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:68,6,0
chr6 44888740 rs608941 C T 94.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.43;SOR=1.179;VQSLOD=8.87;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:122,9,0
chr6 44899632 rs679713 T C 1144.77 PASS AC=2;AF=1.00;AN=2;DB;DP=27;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.54;SOR=6.666;VQSLOD=6.85;culprit=FS GT:AD:DP:GQ:PL 1/1:0,27:27:81:1173,81,0
chr6 44900253 rs3799986 A G 188.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.64;SOR=3.611;VQSLOD=6.39;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:217,15,0
chr6 44903248 rs10948186 C T 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=2.303;VQSLOD=8.97;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 44921320 rs10948187 C T 89.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.76;SOR=2.833;VQSLOD=8.75;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:117,9,0
chr6 44921962 rs625782 T C 65.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.76;SOR=2.833;VQSLOD=7.90;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:93,9,0
chr6 44935341 rs636845 C T 60.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.09;SOR=1.179;VQSLOD=8.15;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:88,9,0
chr6 44952716 rs5875900 GT G 29.71 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=14.85;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:66,6,0
chr6 44972729 rs1159132 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 44988149 rs1475534 C T 529.77 PASS AC=2;AF=1.00;AN=2;DB;DP=14;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.74;SOR=5.421;VQSLOD=7.17;culprit=FS GT:AD:DP:GQ:PL 1/1:0,14:14:42:558,42,0
chr6 45003928 rs4398713 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45020697 rs2149872 A G 61.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.43;SOR=1.179;VQSLOD=8.40;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:89,9,0
chr6 45066168 rs150556986 G A 167.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.388;ClippingRankSum=0.194;DB;DP=14;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.194;POSITIVE_TRAIN_SITE;QD=11.98;ReadPosRankSum=-0.968;SOR=1.402;VQSLOD=5.50;culprit=FS GT:AD:DP:GQ:PL 0/1:8,6:14:99:196,0,294
chr6 45073967 rs2396381 A G 88.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.43;SOR=2.833;VQSLOD=8.42;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:116,9,0
chr6 45090876 . T C 19.79 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=9.89;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:47,6,0
chr6 45159414 rs11321900 TA T 24.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=12.36;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:61,6,0
chr6 45163350 rs1748242 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45170121 rs1284955 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45175908 rs9381373 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45177025 rs2396425 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45192941 rs6911320 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45203918 rs6937317 T C 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=2.303;VQSLOD=8.23;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 45268574 rs111541141 T TAAGAC 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.85;SOR=2.303;VQSLOD=8.28;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 45360194 rs9395099 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45390962 rs11498196 C T 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=7.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 45444061 rs2677110 C T 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=0.693;VQSLOD=9.10;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 45444083 rs35663521 G GA 38.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=19.35;SOR=0.693;VQSLOD=7.75;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 45456564 rs12215249 G T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45486207 rs7771889 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45511541 rs10948238 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45519443 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45521733 rs1201807 C T 47.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.87;SOR=2.303;VQSLOD=8.89;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 45521847 rs70996341 ATGTG A 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;QD=26.85;SOR=2.303;VQSLOD=5.79;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 45523928 rs675613 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45523947 rs5875926 G GA 24.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=12.36;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:61,6,0
chr6 45564510 rs713270 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45609347 . G GT 22.73 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=65.19;MQ0=0;QD=11.36;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:59,6,0
chr6 45705659 rs829913 T A 96.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.09;SOR=1.179;VQSLOD=7.64;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:124,9,0
chr6 45733276 rs6942337 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45749983 rs9357491 A G 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=2.303;VQSLOD=8.52;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 45754997 rs1037281 A C 50.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.37;SOR=0.693;VQSLOD=9.52;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:78,6,0
chr6 45764956 rs11276783 ACAGGGCAGCT A 98.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=29.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.75;SOR=2.833;VQSLOD=7.83;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 45769869 rs10948257 G A 49.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.87;SOR=2.303;VQSLOD=7.93;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:77,6,0
chr6 45792170 rs12197564 G T 13.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=6.86;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:40,3,0
chr6 45808216 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45833836 rs142466444 TTTTC T 85.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.727;ClippingRankSum=-0.727;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.727;POSITIVE_TRAIN_SITE;QD=17.15;ReadPosRankSum=0.727;SOR=0.446;VQSLOD=6.32;culprit=FS GT:AD:DP:GQ:PL 0/1:1,3:4:43:123,0,43
chr6 45847678 rs2396559 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45851886 rs1932042 C T 61.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.43;SOR=1.179;VQSLOD=8.58;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:89,9,0
chr6 45858548 rs71566550 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45870999 rs35735653 CAG C 269.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.065;ClippingRankSum=0.457;DB;DP=33;FS=4.212;MLEAC=1;MLEAF=0.500;MQ=59.43;MQ0=0;MQRankSum=-1.588;POSITIVE_TRAIN_SITE;QD=8.17;ReadPosRankSum=0.239;SOR=1.802;VQSLOD=2.22;culprit=FS GT:AD:DP:GQ:PL 0/1:22,9:31:99:307,0,882
chr6 45888576 rs34155361 ATGC A 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=65.19;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.85;SOR=2.303;VQSLOD=8.66;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 45893031 rs6939554 C T 35.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=17.87;SOR=0.693;VQSLOD=7.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:63,6,0
chr6 45901916 rs9349337 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45909139 rs11421773 C CG 234.74 PASS AC=2;AF=1.00;AN=2;DB;DP=9;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.08;SOR=2.833;VQSLOD=6.34;culprit=FS GT:AD:DP:GQ:PL 1/1:0,8:8:27:272,27,0
chr6 45914028 rs3777582 A T 13.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=13.72;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:40,3,0
chr6 45915413 rs1890368 C G 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=0.693;VQSLOD=8.11;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 45915504 rs1890369 A C 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=0.693;VQSLOD=8.66;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 45919719 rs3777587 A G 60.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.37;SOR=2.303;VQSLOD=6.51;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:88,6,0
chr6 45919758 rs3777588 G A 120.78 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.731;ClippingRankSum=-0.731;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.731;POSITIVE_TRAIN_SITE;QD=24.16;ReadPosRankSum=0.731;SOR=1.981;VQSLOD=6.26;culprit=FS GT:AD:DP:GQ:PL 0/1:1,4:5:27:149,0,27
chr6 45921108 rs3777590 G C 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=9.08;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 45922849 rs3734206 C T 1890.77 PASS AC=2;AF=1.00;AN=2;DB;DP=48;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=35.58;SOR=6.316;VQSLOD=6.34;culprit=QD GT:AD:DP:GQ:PL 1/1:0,47:47:99:1919,141,0
chr6 45923126 rs6909306 A C 252.78 PASS AC=2;AF=1.00;AN=2;DB;DP=8;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.60;SOR=4.407;VQSLOD=6.96;culprit=FS GT:AD:DP:GQ:PL 1/1:0,8:8:24:281,24,0
chr6 45965608 rs3777612 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45989366 rs1204338 A C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 45994992 rs1547605 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46025834 rs1535110 T G 23.58 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=7.86;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:7:51,7,0
chr6 46047269 rs9381423 T C 124.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.945;ClippingRankSum=0.453;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.55;MQ0=0;MQRankSum=-1.586;POSITIVE_TRAIN_SITE;QD=7.80;ReadPosRankSum=1.586;SOR=0.223;VQSLOD=4.04;culprit=QD GT:AD:DP:GQ:PL 0/1:11,5:16:99:153,0,375
chr6 46047458 rs3734207 C T 3075.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-7.190;ClippingRankSum=-0.231;DB;DP=213;FS=0.542;MLEAC=1;MLEAF=0.500;MQ=59.59;MQ0=0;MQRankSum=-1.583;POSITIVE_TRAIN_SITE;QD=14.44;ReadPosRankSum=0.457;SOR=0.754;VQSLOD=1.68;culprit=FS GT:AD:DP:GQ:PL 0/1:107,105:212:99:3104,0,3533
chr6 46048000 rs1416165 T C 2778.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.171;ClippingRankSum=0.218;DB;DP=172;FS=0.639;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.131;POSITIVE_TRAIN_SITE;QD=16.16;ReadPosRankSum=-1.044;SOR=0.794;VQSLOD=1.61;culprit=FS GT:AD:DP:GQ:PL 0/1:74,98:172:99:2807,0,2169
chr6 46107115 rs61381984 A AT 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=0.736;DB;DP=4;FS=4.771;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;QD=3.01;ReadPosRankSum=0.736;SOR=2.225 GT:AD:DP:GQ:PL 0/1:1,2:3:20:49,0,20
chr6 46107312 rs11752816 G A 1890.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.790;ClippingRankSum=0.077;DB;DP=125;FS=3.508;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.580;POSITIVE_TRAIN_SITE;QD=15.13;ReadPosRankSum=-1.351;SOR=0.335;VQSLOD=2.14;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:62,63:125:99:1919,0,1762
chr6 46107752 rs7451713 C G 5119.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=7.032;ClippingRankSum=-2.826;DB;DP=301;FS=1.419;MLEAC=1;MLEAF=0.500;MQ=59.92;MQ0=0;MQRankSum=-0.805;POSITIVE_TRAIN_SITE;QD=17.01;ReadPosRankSum=0.708;SOR=0.792;VQSLOD=1.55;culprit=DP GT:AD:DP:GQ:PL 0/1:146,155:301:99:5148,0,4240
chr6 46110821 rs7769902 A G 202.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.085;ClippingRankSum=0.380;DB;DP=19;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.78;MQ0=0;MQRankSum=-0.211;POSITIVE_TRAIN_SITE;QD=10.67;ReadPosRankSum=-0.549;SOR=0.321;VQSLOD=4.71;culprit=FS GT:AD:DP:GQ:PL 0/1:12,7:19:99:231,0,378
chr6 46110844 rs35942390 T TGA 174.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.717;ClippingRankSum=-0.444;DB;DP=27;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.95;MQ0=0;MQRankSum=1.467;POSITIVE_TRAIN_SITE;QD=6.47;ReadPosRankSum=-0.853;SOR=0.307;VQSLOD=5.69;culprit=FS GT:AD:DP:GQ:PL 0/1:14,8:22:99:212,0,429
chr6 46124799 rs9367237 T A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46129345 rs2235881 G A 4707.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=6.532;ClippingRankSum=-0.307;DB;DP=317;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.01;MQ0=0;MQRankSum=0.655;POSITIVE_TRAIN_SITE;QD=14.85;ReadPosRankSum=2.066;SOR=0.698;VQSLOD=1.89;culprit=FS GT:AD:DP:GQ:PL 0/1:162,154:316:99:4736,0,4689
chr6 46135489 rs6926570 T C 3065.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=6.245;ClippingRankSum=0.018;DB;DP=187;FS=1.135;MLEAC=1;MLEAF=0.500;MQ=59.75;MQ0=0;MQRankSum=0.009;POSITIVE_TRAIN_SITE;QD=16.39;ReadPosRankSum=1.610;SOR=0.809;VQSLOD=2.66;culprit=DP GT:AD:DP:GQ:PL 0/1:96,91:187:99:3094,0,2997
chr6 46135984 rs3806995 G T 1685.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.855;ClippingRankSum=-0.003;DB;DP=117;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.406;POSITIVE_TRAIN_SITE;QD=14.41;ReadPosRankSum=2.665;SOR=0.727;VQSLOD=4.05;culprit=FS GT:AD:DP:GQ:PL 0/1:61,56:117:99:1714,0,1985
chr6 46148778 rs34512199 AT A 24.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=12.36;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:61,6,0
chr6 46170924 . G T 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46206776 rs55832349 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46219283 rs6910477 G A 47.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.87;SOR=2.303;VQSLOD=8.19;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 46259017 rs11389800 G GT 13.89 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=63.51;MQ0=0;QD=4.63;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:50,6,0
chr6 46293328 rs2277121 G A 717.77 PASS AC=2;AF=1.00;AN=2;DB;DP=19;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.88;SOR=5.994;VQSLOD=6.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,19:19:57:746,57,0
chr6 46296710 rs6906742 C T 62.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.76;SOR=1.179;VQSLOD=8.44;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:90,9,0
chr6 46302975 rs60870663 T A 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=8.40;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 46302987 rs58585138 A G 46.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.37;SOR=2.303;VQSLOD=7.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:74,6,0
chr6 46312875 rs9367242 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46321514 . T C 20.78 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.39;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:48,6,0
chr6 46326865 . C G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46456536 rs9349362 C T 33.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=11.26;ReadPosRankSum=-0.736;SOR=1.179;VQSLOD=5.66;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:34:62,0,34
chr6 46462514 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46469927 rs59470467 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46470622 rs67200907 G A 48.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.37;SOR=2.303;VQSLOD=8.76;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:76,6,0
chr6 46479322 rs1609661 A G 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=8.22;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 46490097 rs4714943 C A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46512200 . T C 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46521602 rs699939 C A 599.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.640;ClippingRankSum=0.714;DB;DP=46;FS=1.296;MLEAC=1;MLEAF=0.500;MQ=59.50;MQ0=0;MQRankSum=-0.647;POSITIVE_TRAIN_SITE;QD=13.04;ReadPosRankSum=2.186;SOR=0.911;VQSLOD=2.11;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:27,19:46:99:628,0,724
chr6 46563817 rs7761731 A T 3102.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.173;ClippingRankSum=-1.345;DB;DP=194;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.76;MQ0=0;MQRankSum=0.519;POSITIVE_TRAIN_SITE;QD=15.99;ReadPosRankSum=0.699;SOR=0.739;VQSLOD=2.35;culprit=FS GT:AD:DP:GQ:PL 0/1:90,104:194:99:3131,0,2802
chr6 46607081 rs3085602 AT A 645.73 PASS AC=2;AF=1.00;AN=2;DB;DP=20;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=65.19;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.29;SOR=6.091;VQSLOD=5.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,20:20:60:683,60,0
chr6 46620252 rs12192544 C G 5715.77 VQSRTrancheSNP99.00to99.90 AC=1;AF=0.500;AN=2;BaseQRankSum=2.691;ClippingRankSum=0.485;DB;DP=440;FS=1.133;MLEAC=1;MLEAF=0.500;MQ=59.75;MQ0=0;MQRankSum=-2.934;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=12.99;ReadPosRankSum=-0.818;SOR=0.805;VQSLOD=-9.355e-01;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:239,200:439:99:5744,0,6851
chr6 46623698 rs3757241 T C 6720.77 PASS AC=2;AF=1.00;AN=2;DB;DP=183;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.06;SOR=0.822;VQSLOD=5.03;culprit=FS GT:AD:DP:GQ:PL 1/1:0,179:179:99:6749,538,0
chr6 46625274 rs9381468 A G 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=0.693;VQSLOD=9.35;culprit=DP GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 46626353 rs953062 A G 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=8.60;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 46630068 rs9381469 G A 907.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.991;ClippingRankSum=-0.318;DB;DP=68;FS=14.136;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.231;POSITIVE_TRAIN_SITE;QD=13.35;ReadPosRankSum=1.115;SOR=3.003;VQSLOD=1.21;culprit=FS GT:AD:DP:GQ:PL 0/1:40,28:68:99:936,0,1206
chr6 46637908 rs200254015 A C 76.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-5.158;ClippingRankSum=-1.074;DB;DP=72;FS=148.770;MLEAC=1;MLEAF=0.500;MQ=59.36;MQ0=0;MQRankSum=-0.756;QD=1.07;ReadPosRankSum=-5.463;SOR=5.781;VQSLOD=-4.745e+01;culprit=FS GT:AD:DP:GQ:PL 0/1:55,17:72:99:105,0,1883
chr6 46649231 rs7740677 C T 6652.77 PASS AC=2;AF=1.00;AN=2;DB;DP=183;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.24;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.56;SOR=2.067;VQSLOD=5.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,183:183:99:6681,550,0
chr6 46657057 rs3799277 A G 4300.77 PASS AC=2;AF=1.00;AN=2;DB;DP=112;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=57.78;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.29;SOR=1.350;VQSLOD=6.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,111:111:99:4329,334,0
chr6 46658905 rs9381472 C G 2370.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.957;ClippingRankSum=-1.243;DB;DP=147;FS=3.996;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.165;POSITIVE_TRAIN_SITE;QD=16.13;ReadPosRankSum=0.979;SOR=1.036;VQSLOD=2.15;culprit=DP GT:AD:DP:GQ:PL 0/1:77,70:147:99:2399,0,2735
chr6 46661937 rs55724083 CT C 307.76 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.021;ClippingRankSum=0.615;DB;DP=81;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=54.11;MQ0=0;MQRankSum=-0.913;POSITIVE_TRAIN_SITE;QD=3.80;ReadPosRankSum=0.542;SOR=3.026;VQSLOD=5.76;culprit=FS GT:AD:DP:GQ:PL 0/1:6,30:36:22:345,0,22
chr6 46672205 . TCTCTCTCTCTCA T 62.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.219;ClippingRankSum=0.361;DP=48;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=49.85;MQ0=0;MQRankSum=-1.307;QD=1.31;ReadPosRankSum=2.219;SOR=0.892;VQSLOD=2.56;culprit=FS GT:AD:DP:GQ:PL 0/1:15,5:20:99:100,0,440
chr6 46672452 rs148052037 TAATC T 1973.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.650;ClippingRankSum=1.355;DB;DP=107;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=55.10;MQ0=0;MQRankSum=-2.444;POSITIVE_TRAIN_SITE;QD=18.45;ReadPosRankSum=-0.854;SOR=0.718;VQSLOD=3.96;culprit=FS GT:AD:DP:GQ:PL 0/1:51,52:103:99:2011,0,3030
chr6 46672943 rs1051931 A G 6548.77 PASS AC=2;AF=1.00;AN=2;DB;DP=172;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.65;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.43;SOR=1.172;VQSLOD=3.94;culprit=FS GT:AD:DP:GQ:PL 1/1:0,170:170:99:6577,511,0
chr6 46676019 rs2216465 C G 430.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.311;ClippingRankSum=0.241;DB;DP=29;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.548;POSITIVE_TRAIN_SITE;QD=14.85;ReadPosRankSum=-0.022;SOR=0.518;VQSLOD=5.37;culprit=FS GT:AD:DP:GQ:PL 0/1:16,13:29:99:459,0,615
chr6 46682079 rs1362931 A C 1919.77 PASS AC=2;AF=1.00;AN=2;DB;DP=50;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.23;SOR=7.864;VQSLOD=7.44;culprit=FS GT:AD:DP:GQ:PL 1/1:0,50:50:99:1948,150,0
chr6 46683978 rs41361844 T TA 363.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.549;ClippingRankSum=1.214;DB;DP=33;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.33;MQ0=0;MQRankSum=-0.419;POSITIVE_TRAIN_SITE;QD=11.02;ReadPosRankSum=1.046;SOR=0.473;VQSLOD=6.00;culprit=FS GT:AD:DP:GQ:PL 0/1:17,13:30:99:401,0,436
chr6 46684222 rs1805017 C T 2595.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.964;ClippingRankSum=-0.355;DB;DP=171;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.76;MQ0=0;MQRankSum=1.275;POSITIVE_TRAIN_SITE;QD=15.18;ReadPosRankSum=0.601;SOR=0.648;VQSLOD=2.60;culprit=FS GT:AD:DP:GQ:PL 0/1:85,85:170:99:2624,0,2396
chr6 46685286 rs6929105 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46689762 rs9472830 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46695144 . G A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46714081 rs141667902 GTTCTCC G 187.87 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=48.03;MQ0=0;QD=31.31;SOR=1.022;VQSLOD=5.89;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:225,15,0
chr6 46727772 rs6918050 G C 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=0.693;VQSLOD=8.87;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 46730039 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=27.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46761495 rs2274656 G A 1258.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.705;ClippingRankSum=0.492;DB;DP=66;FS=11.133;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.161;POSITIVE_TRAIN_SITE;QD=19.07;ReadPosRankSum=0.794;SOR=0.077;VQSLOD=0.934;culprit=FS GT:AD:DP:GQ:PL 0/1:26,40:66:99:1287,0,859
chr6 46766467 rs872018 G C 826.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.434;ClippingRankSum=0.387;DB;DP=45;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=57.49;MQ0=0;MQRankSum=0.716;POSITIVE_TRAIN_SITE;QD=18.37;ReadPosRankSum=-3.462;SOR=1.681;VQSLOD=3.22;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:22,22:44:99:855,0,1647
chr6 46766468 rs872019 G C 826.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.555;ClippingRankSum=-0.670;DB;DP=46;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=57.55;MQ0=0;MQRankSum=-0.329;POSITIVE_TRAIN_SITE;QD=17.97;ReadPosRankSum=-2.986;SOR=1.609;VQSLOD=4.20;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:23,22:45:99:855,0,1647
chr6 46775361 rs2894714 A G 95.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.76;SOR=1.179;VQSLOD=6.48;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:123,9,0
chr6 46777377 rs1833460 T C 2742.77 PASS AC=2;AF=1.00;AN=2;DB;DP=78;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.70;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.37;SOR=5.892;VQSLOD=6.63;culprit=FS GT:AD:DP:GQ:PL 1/1:0,78:78:99:2771,235,0
chr6 46784183 rs9367257 A G 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=2.303;VQSLOD=8.03;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 46793175 rs6920863 G A 976.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.347;ClippingRankSum=0.690;DB;DP=69;FS=2.675;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.762;POSITIVE_TRAIN_SITE;QD=14.16;ReadPosRankSum=-0.654;SOR=0.378;VQSLOD=3.19;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:35,34:69:99:1005,0,1233
chr6 46794048 rs2297018 C G 1559.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.778;ClippingRankSum=1.150;DB;DP=86;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.92;MQ0=0;MQRankSum=0.527;POSITIVE_TRAIN_SITE;QD=18.14;ReadPosRankSum=-0.821;SOR=0.791;VQSLOD=4.49;culprit=FS GT:AD:DP:GQ:PL 0/1:41,45:86:99:1588,0,1376
chr6 46797329 rs2274657 G A 1320.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.675;ClippingRankSum=0.827;DB;DP=98;FS=1.251;MLEAC=1;MLEAF=0.500;MQ=58.33;MQ0=0;MQRankSum=-0.371;POSITIVE_TRAIN_SITE;QD=13.48;ReadPosRankSum=0.307;SOR=0.399;VQSLOD=3.23;culprit=DP GT:AD:DP:GQ:PL 0/1:53,45:98:99:1349,0,1847
chr6 46797515 rs6903045 G A 68.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.406;ClippingRankSum=0.406;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.406;POSITIVE_TRAIN_SITE;QD=11.46;ReadPosRankSum=0.406;SOR=2.093;VQSLOD=6.66;culprit=FS GT:AD:DP:GQ:PL 0/1:3,3:6:73:97,0,73
chr6 46801071 rs2274658 G T 2458.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.720;ClippingRankSum=0.231;DB;DP=169;FS=2.721;MLEAC=1;MLEAF=0.500;MQ=59.86;MQ0=0;MQRankSum=-0.436;POSITIVE_TRAIN_SITE;QD=14.55;ReadPosRankSum=2.140;SOR=0.917;VQSLOD=2.52;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:89,80:169:99:2487,0,2786
chr6 46802172 . ATATTTATT A 98.25 PASS AC=2;AF=1.00;AN=2;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=29.00;MQ0=0;QD=32.75;SOR=2.833;VQSLOD=6.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 46802370 rs4714952 G A 4383.77 PASS AC=2;AF=1.00;AN=2;DB;DP=119;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.22;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.86;SOR=1.198;VQSLOD=7.13;culprit=FS GT:AD:DP:GQ:PL 1/1:0,119:119:99:4412,357,0
chr6 46802901 rs2297021 G C 87.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.720;ClippingRankSum=0.720;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.38;MQ0=0;MQRankSum=0.720;POSITIVE_TRAIN_SITE;QD=14.63;ReadPosRankSum=-0.720;SOR=0.368;VQSLOD=5.79;culprit=FS GT:AD:DP:GQ:PL 0/1:2,4:6:67:116,0,67
chr6 46803018 rs2297020 A T 292.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.746;ClippingRankSum=0.040;DB;DP=32;FS=3.467;MLEAC=1;MLEAF=0.500;MQ=58.35;MQ0=0;MQRankSum=0.913;POSITIVE_TRAIN_SITE;QD=9.15;ReadPosRankSum=-0.357;SOR=1.659;VQSLOD=2.47;culprit=QD GT:AD:DP:GQ:PL 0/1:21,11:32:99:321,0,590
chr6 46803102 rs2297019 A G 273.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.297;ClippingRankSum=-1.681;DB;DP=23;FS=1.740;MLEAC=1;MLEAF=0.500;MQ=58.99;MQ0=0;MQRankSum=-1.484;POSITIVE_TRAIN_SITE;QD=11.90;ReadPosRankSum=-0.495;SOR=0.925;VQSLOD=2.16;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:12,10:22:99:302,0,349
chr6 46803345 rs12196017 G A 98.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.754;ClippingRankSum=0.550;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=52.07;MQ0=0;MQRankSum=0.000;POSITIVE_TRAIN_SITE;QD=14.11;ReadPosRankSum=1.754;SOR=0.941;VQSLOD=6.35;culprit=FS GT:AD:DP:GQ:PL 0/1:3,4:7:96:127,0,96
chr6 46806766 rs115391170 G A 1395.77 VQSRTrancheSNP99.00to99.90 AC=1;AF=0.500;AN=2;BaseQRankSum=-1.528;ClippingRankSum=0.481;DB;DP=95;FS=14.804;MLEAC=1;MLEAF=0.500;MQ=56.80;MQ0=0;MQRankSum=2.724;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=14.69;ReadPosRankSum=1.677;SOR=0.144;VQSLOD=-1.508e-01;culprit=FS GT:AD:DP:GQ:PL 0/1:44,48:92:99:1424,0,1271
chr6 46806802 rs143826629 G A 1031.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.214;ClippingRankSum=0.523;DB;DP=71;FS=2.497;MLEAC=1;MLEAF=0.500;MQ=56.16;MQ0=0;MQRankSum=0.719;QD=14.53;ReadPosRankSum=-0.144;SOR=0.401;VQSLOD=1.61;culprit=DP GT:AD:DP:GQ:PL 0/1:36,35:71:99:1060,0,1434
chr6 46806809 rs1804211 C T 1130.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.852;ClippingRankSum=0.535;DB;DP=71;FS=1.182;MLEAC=1;MLEAF=0.500;MQ=55.98;MQ0=0;MQRankSum=-0.121;POSITIVE_TRAIN_SITE;QD=15.93;ReadPosRankSum=1.122;SOR=0.995;VQSLOD=3.20;culprit=FS GT:AD:DP:GQ:PL 0/1:34,37:71:99:1159,0,1325
chr6 46806939 rs17468190 G T 181.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.380;ClippingRankSum=0.244;DB;DP=14;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=46.24;MQ0=0;MQRankSum=-1.977;POSITIVE_TRAIN_SITE;QD=12.98;ReadPosRankSum=0.689;SOR=1.022;VQSLOD=4.95;culprit=FS GT:AD:DP:GQ:PL 0/1:5,7:12:99:210,0,155
chr6 46806948 rs150225810 G GTTTGGGGCAGCT 230.82 PASS AC=2;AF=1.00;AN=2;DB;DP=12;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=45.62;MQ0=0;QD=19.23;SOR=3.912;VQSLOD=4.37;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:17:268,17,0
chr6 46807040 rs1059276 C A 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=8.88;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 46817550 rs6929917 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46817982 rs6458525 C T 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=8.65;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 46821191 . A G 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:28:40,0,28
chr6 46822349 rs475991 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46823695 rs657340 G A 1861.77 PASS AC=2;AF=1.00;AN=2;DB;DP=53;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=56.56;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.21;SOR=1.893;VQSLOD=6.39;culprit=FS GT:AD:DP:GQ:PL 1/1:0,52:52:99:1890,156,0
chr6 46823805 rs58687946 A AG 1627.73 PASS AC=2;AF=1.00;AN=2;DB;DP=50;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=55.74;MQ0=0;QD=32.55;SOR=2.511;VQSLOD=4.68;culprit=FS GT:AD:DP:GQ:PL 1/1:0,46:46:99:1665,138,0
chr6 46824279 rs526123 A G 176.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.248;ClippingRankSum=1.203;DB;DP=9;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=45.96;MQ0=0;MQRankSum=-1.683;POSITIVE_TRAIN_SITE;QD=19.64;ReadPosRankSum=-0.573;SOR=1.402;VQSLOD=5.29;culprit=FS GT:AD:DP:GQ:PL 0/1:3,6:9:92:205,0,92
chr6 46824448 rs643409 A G 2848.77 PASS AC=2;AF=1.00;AN=2;DB;DP=83;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=34.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.32;SOR=1.816;VQSLOD=7.31;culprit=FS GT:AD:DP:GQ:PL 1/1:0,83:83:99:2877,250,0
chr6 46824798 rs521502 C G 420.77 PASS AC=2;AF=1.00;AN=2;DB;DP=11;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.32;SOR=4.977;VQSLOD=6.96;culprit=FS GT:AD:DP:GQ:PL 1/1:0,11:11:33:449,33,0
chr6 46825595 rs2281443 G A 37.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=18.87;SOR=2.303;VQSLOD=8.08;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:65,6,0
chr6 46825632 rs627910 G C 40.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.37;SOR=2.303;VQSLOD=7.74;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:68,6,0
chr6 46826508 rs613870 G A 2427.77 PASS AC=2;AF=1.00;AN=2;DB;DP=67;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.69;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.42;SOR=0.917;VQSLOD=7.01;culprit=DP GT:AD:DP:GQ:PL 1/1:0,67:67:99:2456,202,0
chr6 46826715 rs572248 T A 4133.77 PASS AC=2;AF=1.00;AN=2;DB;DP=118;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=57.35;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.43;SOR=0.881;VQSLOD=6.50;culprit=FS GT:AD:DP:GQ:PL 1/1:0,114:114:99:4162,343,0
chr6 46826844 rs571247 T C 5230.77 PASS AC=2;AF=1.00;AN=2;DB;DP=144;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.87;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.63;SOR=1.006;VQSLOD=6.93;culprit=FS GT:AD:DP:GQ:PL 1/1:0,144:144:99:5259,433,0
chr6 46826910 rs611779 G A 4855.77 PASS AC=2;AF=1.00;AN=2;DB;DP=132;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.04;SOR=1.119;VQSLOD=5.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,132:132:99:4884,397,0
chr6 46826979 rs9381487 A G 1623.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.727;ClippingRankSum=-0.199;DB;DP=106;FS=2.830;MLEAC=1;MLEAF=0.500;MQ=59.82;MQ0=0;MQRankSum=-0.130;POSITIVE_TRAIN_SITE;QD=15.32;ReadPosRankSum=0.117;SOR=1.041;VQSLOD=2.59;culprit=DP GT:AD:DP:GQ:PL 0/1:54,52:106:99:1652,0,1669
chr6 46827073 rs547499 A G 1003.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.612;ClippingRankSum=-0.887;DB;DP=64;FS=0.955;MLEAC=1;MLEAF=0.500;MQ=58.48;MQ0=0;MQRankSum=-0.699;POSITIVE_TRAIN_SITE;QD=15.68;ReadPosRankSum=-0.094;SOR=0.831;VQSLOD=2.97;culprit=FS GT:AD:DP:GQ:PL 0/1:31,33:64:99:1032,0,968
chr6 46827126 rs610856 C T 2450.77 PASS AC=2;AF=1.00;AN=2;DB;DP=64;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.18;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.98;SOR=0.966;VQSLOD=5.61;culprit=FS GT:AD:DP:GQ:PL 1/1:0,64:64:99:2479,192,0
chr6 46827239 rs9395218 C T 1247.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.769;ClippingRankSum=-0.087;DB;DP=83;FS=13.228;MLEAC=1;MLEAF=0.500;MQ=51.70;MQ0=0;MQRankSum=0.844;POSITIVE_TRAIN_SITE;QD=15.03;ReadPosRankSum=1.346;SOR=0.158;VQSLOD=1.45;culprit=FS GT:AD:DP:GQ:PL 0/1:39,44:83:99:1276,0,1186
chr6 46828670 rs540727 A G 1780.77 PASS AC=2;AF=1.00;AN=2;DB;DP=46;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.96;SOR=4.804;VQSLOD=6.53;culprit=FS GT:AD:DP:GQ:PL 1/1:0,46:46:99:1809,138,0
chr6 46830243 rs483813 T C 95.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.76;SOR=1.179;VQSLOD=8.22;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:123,9,0
chr6 46832536 rs531049 T C 161.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.96;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.38;SOR=3.611;VQSLOD=6.60;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:190,15,0
chr6 46832553 rs530990 A G 80.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.76;SOR=2.833;VQSLOD=8.23;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:108,9,0
chr6 46832642 rs615677 A C 985.77 PASS AC=2;AF=1.00;AN=2;DB;DP=26;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.43;SOR=6.593;VQSLOD=7.43;culprit=FS GT:AD:DP:GQ:PL 1/1:0,26:26:78:1014,78,0
chr6 46832741 rs529201 T C 4511.77 PASS AC=2;AF=1.00;AN=2;DB;DP=123;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.85;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.57;SOR=3.352;VQSLOD=5.31;culprit=FS GT:AD:DP:GQ:PL 1/1:0,123:123:99:4540,368,0
chr6 46832813 rs614826 G A 3006.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-7.723;ClippingRankSum=-0.748;DB;DP=234;FS=8.321;MLEAC=1;MLEAF=0.500;MQ=59.84;MQ0=0;MQRankSum=1.246;POSITIVE_TRAIN_SITE;QD=12.85;ReadPosRankSum=1.650;SOR=1.157;VQSLOD=1.43;culprit=FS GT:AD:DP:GQ:PL 0/1:127,107:234:99:3035,0,4266
chr6 46834473 rs586986 T G 189.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.86;SOR=3.611;VQSLOD=5.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:218,15,0
chr6 46834685 rs586024 G A 4443.77 PASS AC=2;AF=1.00;AN=2;DB;DP=121;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.50;SOR=1.857;VQSLOD=6.18;culprit=FS GT:AD:DP:GQ:PL 1/1:0,121:121:99:4472,364,0
chr6 46834906 rs5875987 TG T 2501.73 PASS AC=2;AF=1.00;AN=2;DB;DP=69;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.62;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.68;SOR=3.007;VQSLOD=5.93;culprit=FS GT:AD:DP:GQ:PL 1/1:0,68:68:99:2539,205,0
chr6 46836406 rs665551 G C 117.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.26;SOR=3.258;VQSLOD=5.89;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:145,12,0
chr6 46836995 rs515866 T C 146.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.38;SOR=3.611;VQSLOD=6.79;culprit=DP GT:AD:DP:GQ:PL 1/1:0,5:5:15:175,15,0
chr6 46839435 rs58989382 T C 406.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.854;ClippingRankSum=-0.174;DB;DP=24;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.927;POSITIVE_TRAIN_SITE;QD=16.95;ReadPosRankSum=2.202;SOR=0.859;VQSLOD=4.91;culprit=FS GT:AD:DP:GQ:PL 0/1:11,13:24:99:435,0,357
chr6 46841306 rs220675 T C 195.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.97;SOR=0.941;VQSLOD=5.21;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:224,21,0
chr6 46846277 rs220668 G A 565.77 PASS AC=2;AF=1.00;AN=2;DB;DP=15;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.42;SOR=5.549;VQSLOD=6.31;culprit=FS GT:AD:DP:GQ:PL 1/1:0,15:15:45:594,45,0
chr6 46847501 rs2273265 T G 803.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.965;ClippingRankSum=0.700;DB;DP=55;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.735;POSITIVE_TRAIN_SITE;QD=14.61;ReadPosRankSum=1.889;SOR=1.223;VQSLOD=5.17;culprit=FS GT:AD:DP:GQ:PL 0/1:31,23:54:99:832,0,1017
chr6 46849057 rs11760108 G T 191.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.980;ClippingRankSum=0.068;DB;DP=15;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.75;MQ0=0;MQRankSum=0.299;POSITIVE_TRAIN_SITE;QD=12.78;ReadPosRankSum=0.201;SOR=0.693;VQSLOD=6.72;culprit=FS GT:AD:DP:GQ:PL 0/1:7,7:14:99:220,0,248
chr6 46852193 rs220663 C T 254.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.99;SOR=4.174;VQSLOD=7.14;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:283,21,0
chr6 46855734 . C CAGGGAAGAGGACCCAGTAGTTTATCTGCCCA 53.70 PASS AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;QD=26.85;SOR=2.303;VQSLOD=5.93;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 46856100 rs678312 G A 5756.77 PASS AC=2;AF=1.00;AN=2;DB;DP=152;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.73;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.10;SOR=1.091;VQSLOD=6.42;culprit=FS GT:AD:DP:GQ:PL 1/1:0,152:152:99:5785,457,0
chr6 46858081 rs9472896 T C 42.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.37;SOR=2.303;VQSLOD=7.76;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:70,6,0
chr6 46867717 rs220702 C T 2958.77 PASS AC=2;AF=1.00;AN=2;DB;DP=78;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.51;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.40;SOR=3.316;VQSLOD=6.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,78:78:99:2987,235,0
chr6 46867898 rs3215601 TA T 1316.73 PASS AC=2;AF=1.00;AN=2;DB;DP=41;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.26;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.12;SOR=5.892;VQSLOD=4.96;culprit=FS GT:AD:DP:GQ:PL 1/1:0,38:38:99:1354,114,0
chr6 46869895 rs220698 T G 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=8.36;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 46874325 rs114267112 T G 1871.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.381;ClippingRankSum=1.525;DB;DP=109;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=2.943;POSITIVE_TRAIN_SITE;QD=17.17;ReadPosRankSum=2.083;SOR=0.752;VQSLOD=2.72;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:53,56:109:99:1900,0,1690
chr6 46895158 rs6458530 C T 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=8.44;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 46928378 rs2396803 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46929606 rs1889578 T C 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=8.59;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 46931019 rs4714972 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46932290 rs9472940 T C 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=-0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:32:40,0,32
chr6 46935422 rs9296519 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 46980115 rs1226479 G A 103.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.036;ClippingRankSum=0.365;DB;DP=10;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.133;POSITIVE_TRAIN_SITE;QD=10.38;ReadPosRankSum=0.741;SOR=0.412;VQSLOD=6.30;culprit=FS GT:AD:DP:GQ:PL 0/1:6,4:10:99:132,0,220
chr6 46986916 rs1226496 G A 100.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.01;SOR=1.609;VQSLOD=8.14;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:128,12,0
chr6 47015046 rs1352665 G T 49.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.87;SOR=0.693;VQSLOD=9.21;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:77,6,0
chr6 47029819 rs945217 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47037438 rs1226539 G A 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=0.693;VQSLOD=8.26;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 47079304 rs10948329 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47106677 . T C 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47116726 rs2003031 C T 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=26.37;SOR=2.303;VQSLOD=6.47;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 47163022 rs76480727 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47176242 rs11368956 C CA 44.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.35;SOR=0.693;VQSLOD=8.41;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0
chr6 47200360 . AAC A 225.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.751;ClippingRankSum=0.751;DP=18;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=53.23;MQ0=0;MQRankSum=-0.751;QD=12.54;ReadPosRankSum=-0.751;SOR=3.056;VQSLOD=4.97;culprit=FS GT:AD:DP:GQ:PL 0/1:1,11:12:4:212,0,4
chr6 47200703 rs202137000 A C 155.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-6.080;ClippingRankSum=0.291;DB;DP=89;FS=88.069;MLEAC=1;MLEAF=0.500;MQ=56.54;MQ0=0;MQRankSum=-0.508;QD=1.75;ReadPosRankSum=-1.601;SOR=6.868;VQSLOD=-1.420e+01;culprit=FS GT:AD:DP:GQ:PL 0/1:59,30:89:99:184,0,1744
chr6 47228836 rs4715001 C A 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=2.303;VQSLOD=8.80;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 47228912 rs10807350 G A 61.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.43;SOR=1.179;VQSLOD=8.68;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:89,9,0
chr6 47369341 rs4301296 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47373447 rs1931826 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47425273 rs1889494 T C 57.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.87;SOR=2.303;VQSLOD=8.52;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:85,6,0
chr6 47450481 rs9395261 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47462615 rs2184398 T C 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=8.42;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 47464881 rs62410680 G A 107.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;QD=23.04;SOR=2.833;VQSLOD=7.19;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 47464883 rs202187543 G GT 98.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;QD=32.75;SOR=2.833;VQSLOD=6.88;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 47467043 rs34508069 A ATG 34.71 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.44;MQ0=0;POSITIVE_TRAIN_SITE;QD=11.57;SOR=0.693;VQSLOD=7.53;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:71,6,0
chr6 47470146 rs1564926 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47489866 rs62410686 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47494842 rs35617629 T TC 24.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.44;MQ0=0;QD=8.24;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:61,6,0
chr6 47512229 rs6915993 C T 472.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.902;ClippingRankSum=-1.520;DB;DP=28;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.645;POSITIVE_TRAIN_SITE;QD=16.88;ReadPosRankSum=-0.369;SOR=0.836;VQSLOD=5.04;culprit=FS GT:AD:DP:GQ:PL 0/1:13,15:28:99:501,0,447
chr6 47512590 rs6916578 C T 344.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.172;ClippingRankSum=-0.793;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.340;POSITIVE_TRAIN_SITE;QD=21.55;ReadPosRankSum=-0.566;SOR=1.609;VQSLOD=6.22;culprit=FS GT:AD:DP:GQ:PL 0/1:5,11:16:99:373,0,169
chr6 47522357 rs9473132 G A 2114.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.279;ClippingRankSum=0.098;DB;DP=140;FS=1.431;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.117;POSITIVE_TRAIN_SITE;QD=15.11;ReadPosRankSum=-0.616;SOR=0.874;VQSLOD=2.05;culprit=DP GT:AD:DP:GQ:PL 0/1:66,74:140:99:2143,0,2115
chr6 47530422 rs9395277 A C 559.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.83;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.99;SOR=5.549;VQSLOD=6.68;culprit=QD GT:AD:DP:GQ:PL 1/1:0,15:15:45:588,45,0
chr6 47532683 rs9395278 T A 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=9.00;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 47545058 rs978448 C T 76.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.406;ClippingRankSum=0.406;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.988;POSITIVE_TRAIN_SITE;QD=12.79;ReadPosRankSum=0.406;SOR=2.093;VQSLOD=6.60;culprit=FS GT:AD:DP:GQ:PL 0/1:3,3:6:99:105,0,105
chr6 47548672 rs1014001 C A 2124.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.361;ClippingRankSum=1.150;DB;DP=186;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.80;MQ0=0;MQRankSum=1.434;POSITIVE_TRAIN_SITE;QD=11.42;ReadPosRankSum=-1.001;SOR=0.701;VQSLOD=1.41;culprit=FS GT:AD:DP:GQ:PL 0/1:112,73:185:99:2153,0,3635
chr6 47549586 rs6926592 A T 31.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.026;ClippingRankSum=1.026;DB;DP=9;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=45.47;MQ0=0;MQRankSum=1.026;POSITIVE_TRAIN_SITE;QD=3.53;ReadPosRankSum=-1.026;SOR=0.693;VQSLOD=5.09;culprit=QD GT:AD:DP:GQ:PL 0/1:2,2:4:60:60,0,65
chr6 47549883 rs2275446 T C 1040.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.815;ClippingRankSum=-1.023;DB;DP=59;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.902;POSITIVE_TRAIN_SITE;QD=17.64;ReadPosRankSum=1.327;SOR=1.609;VQSLOD=5.52;culprit=FS GT:AD:DP:GQ:PL 0/1:30,29:59:99:1069,0,967
chr6 47563692 rs2039503 C T 15612.77 PASS AC=2;AF=1.00;AN=2;DB;DP=434;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.93;MQ0=0;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=32.86;SOR=1.288;VQSLOD=0.729;culprit=DP GT:AD:DP:GQ:PL 1/1:0,433:433:99:15641,1302,0
chr6 47577064 rs9395287 G A 1930.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.080;ClippingRankSum=-0.414;DB;DP=155;FS=5.202;MLEAC=1;MLEAF=0.500;MQ=59.55;MQ0=0;MQRankSum=1.011;POSITIVE_TRAIN_SITE;QD=12.46;ReadPosRankSum=1.551;SOR=0.345;VQSLOD=2.02;culprit=DP GT:AD:DP:GQ:PL 0/1:89,66:155:99:1959,0,2911
chr6 47591856 rs10948368 T C 837.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.469;ClippingRankSum=1.334;DB;DP=42;FS=3.025;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.826;POSITIVE_TRAIN_SITE;QD=19.95;ReadPosRankSum=1.309;SOR=0.151;VQSLOD=2.32;culprit=QD GT:AD:DP:GQ:PL 0/1:18,24:42:99:866,0,595
chr6 47592328 rs11309569 GT G 75.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.08;SOR=1.179;VQSLOD=8.27;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:112,9,0
chr6 47611404 rs13196954 C G 36.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.937;ClippingRankSum=0.000;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.000;POSITIVE_TRAIN_SITE;QD=5.25;ReadPosRankSum=0.937;SOR=0.446;VQSLOD=4.88;culprit=QD GT:AD:DP:GQ:PL 0/1:4,3:7:65:65,0,111
chr6 47611442 rs7766527 T C 84.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.000;ClippingRankSum=-0.421;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-2.017;POSITIVE_TRAIN_SITE;QD=10.60;ReadPosRankSum=0.421;SOR=1.609;VQSLOD=4.55;culprit=FS GT:AD:DP:GQ:PL 0/1:4,4:8:99:113,0,102
chr6 47624115 rs1485782 C T 140.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.922;ClippingRankSum=0.198;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=53.03;MQ0=0;MQRankSum=-0.922;POSITIVE_TRAIN_SITE;QD=20.11;ReadPosRankSum=1.495;SOR=1.609;VQSLOD=5.61;culprit=FS GT:AD:DP:GQ:PL 0/1:2,5:7:57:169,0,57
chr6 47624129 rs1485783 G A 221.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.733;ClippingRankSum=-0.898;DB;DP=10;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=52.65;MQ0=0;MQRankSum=-0.480;POSITIVE_TRAIN_SITE;QD=22.18;ReadPosRankSum=0.480;SOR=2.303;VQSLOD=5.41;culprit=FS GT:AD:DP:GQ:PL 0/1:2,8:10:57:250,0,57
chr6 47624239 rs1485784 A G 779.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.260;ClippingRankSum=-1.087;DB;DP=42;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.33;MQ0=0;MQRankSum=-0.455;POSITIVE_TRAIN_SITE;QD=18.57;ReadPosRankSum=-1.744;SOR=0.286;VQSLOD=5.10;culprit=FS GT:AD:DP:GQ:PL 0/1:19,23:42:99:808,0,614
chr6 47624299 rs9369730 A G 990.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.981;ClippingRankSum=0.405;DB;DP=68;FS=2.459;MLEAC=1;MLEAF=0.500;MQ=56.52;MQ0=0;MQRankSum=-0.459;POSITIVE_TRAIN_SITE;QD=14.57;ReadPosRankSum=2.549;SOR=0.389;VQSLOD=2.90;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:29,35:64:99:1019,0,894
chr6 47624633 rs1021231 G A 201.84 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=56.04;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.64;SOR=3.912;VQSLOD=7.41;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:18:230,18,0
chr6 47626149 rs6934553 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47626490 rs10456129 G C 47.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;POSITIVE_TRAIN_SITE;QD=15.92;ReadPosRankSum=0.736;SOR=1.179;VQSLOD=6.40;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:30:76,0,30
chr6 47626685 rs6935668 C T 505.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.678;ClippingRankSum=-0.091;DB;DP=50;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.677;POSITIVE_TRAIN_SITE;QD=10.12;ReadPosRankSum=-0.677;SOR=0.670;VQSLOD=4.29;culprit=FS GT:AD:DP:GQ:PL 0/1:32,18:50:99:534,0,1085
chr6 47626833 rs12201065 C A 1126.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.697;ClippingRankSum=-0.211;DB;DP=79;FS=1.842;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.624;POSITIVE_TRAIN_SITE;QD=14.26;ReadPosRankSum=2.098;SOR=0.509;VQSLOD=3.19;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:42,37:79:99:1155,0,1430
chr6 47631622 rs2396829 G T 13.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;QD=6.86;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:40,3,0
chr6 47641307 rs1411049 G C 1221.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-6.168;ClippingRankSum=0.230;DB;DP=74;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.479;POSITIVE_TRAIN_SITE;QD=16.51;ReadPosRankSum=-0.340;SOR=1.061;VQSLOD=4.74;culprit=FS GT:AD:DP:GQ:PL 0/1:31,43:74:99:1250,0,1019
chr6 47645772 rs9369734 G T 131.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.387;ClippingRankSum=-0.717;DB;DP=11;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=57.87;MQ0=0;MQRankSum=1.186;POSITIVE_TRAIN_SITE;QD=11.98;ReadPosRankSum=1.031;SOR=0.551;VQSLOD=4.95;culprit=FS GT:AD:DP:GQ:PL 0/1:6,5:11:99:160,0,198
chr6 47646468 rs6929227 T C 36.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=12.26;ReadPosRankSum=-0.736;SOR=1.179;VQSLOD=5.87;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:33:65,0,33
chr6 47646842 rs6907125 A G 1474.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.856;ClippingRankSum=0.375;DB;DP=112;FS=1.527;MLEAC=1;MLEAF=0.500;MQ=59.83;MQ0=0;MQRankSum=-0.670;POSITIVE_TRAIN_SITE;QD=13.17;ReadPosRankSum=-0.351;SOR=0.896;VQSLOD=2.99;culprit=DP GT:AD:DP:GQ:PL 0/1:57,54:111:99:1503,0,1770
chr6 47647004 rs6911739 C T 236.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.835;ClippingRankSum=-0.289;DB;DP=14;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.536;POSITIVE_TRAIN_SITE;QD=16.91;ReadPosRankSum=0.289;SOR=0.495;VQSLOD=6.19;culprit=FS GT:AD:DP:GQ:PL 0/1:4,8:12:99:265,0,101
chr6 47647593 rs58870329 GA G 32.74 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=10.91;ReadPosRankSum=0.736;SOR=1.179;VQSLOD=6.02;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:30:70,0,30
chr6 47649222 rs8180544 T G 3766.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.617;ClippingRankSum=-0.635;DB;DP=262;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.75;MQ0=0;MQRankSum=-0.348;POSITIVE_TRAIN_SITE;QD=14.38;ReadPosRankSum=1.474;SOR=0.706;VQSLOD=1.98;culprit=FS GT:AD:DP:GQ:PL 0/1:130,131:261:99:3795,0,4054
chr6 47649265 rs17541107 T A 4039.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.520;ClippingRankSum=0.331;DB;DP=283;FS=5.506;MLEAC=1;MLEAF=0.500;MQ=59.84;MQ0=0;MQRankSum=-0.377;POSITIVE_TRAIN_SITE;QD=14.27;ReadPosRankSum=1.570;SOR=0.994;VQSLOD=1.83;culprit=DP GT:AD:DP:GQ:PL 0/1:148,135:283:99:4068,0,4356
chr6 47649573 rs10807371 C T 3884.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.363;ClippingRankSum=0.166;DB;DP=210;FS=0.513;MLEAC=1;MLEAF=0.500;MQ=59.82;MQ0=0;MQRankSum=-0.736;POSITIVE_TRAIN_SITE;QD=18.50;ReadPosRankSum=2.787;SOR=0.633;VQSLOD=1.64;culprit=FS GT:AD:DP:GQ:PL 0/1:110,99:209:99:3913,0,7372
chr6 47649574 rs10807372 A G 3884.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.254;ClippingRankSum=0.771;DB;DP=211;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.82;MQ0=0;MQRankSum=1.085;POSITIVE_TRAIN_SITE;QD=18.41;ReadPosRankSum=2.423;SOR=0.713;VQSLOD=1.59;culprit=FS GT:AD:DP:GQ:PL 0/1:108,102:210:99:3913,0,7372
chr6 47649694 rs9381594 A G 2384.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.217;ClippingRankSum=0.797;DB;DP=160;FS=5.307;MLEAC=1;MLEAF=0.500;MQ=59.71;MQ0=0;MQRankSum=0.869;POSITIVE_TRAIN_SITE;QD=14.90;ReadPosRankSum=0.046;SOR=1.179;VQSLOD=2.22;culprit=DP GT:AD:DP:GQ:PL 0/1:82,78:160:99:2413,0,2636
chr6 47653485 rs9369736 A G 580.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.376;ClippingRankSum=-0.637;DB;DP=39;FS=6.870;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.099;POSITIVE_TRAIN_SITE;QD=14.89;ReadPosRankSum=1.119;SOR=2.200;VQSLOD=2.66;culprit=FS GT:AD:DP:GQ:PL 0/1:22,17:39:99:609,0,665
chr6 47653536 rs9381596 A G 676.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.398;ClippingRankSum=-1.699;DB;DP=50;FS=5.655;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.621;POSITIVE_TRAIN_SITE;QD=13.54;ReadPosRankSum=1.097;SOR=1.197;VQSLOD=1.88;culprit=FS GT:AD:DP:GQ:PL 0/1:26,24:50:99:705,0,787
chr6 47654591 rs10948376 G T 642.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.972;ClippingRankSum=-0.822;DB;DP=39;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=2.782;POSITIVE_TRAIN_SITE;QD=16.48;ReadPosRankSum=-0.752;SOR=1.085;VQSLOD=3.73;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:14,20:34:99:671,0,497
chr6 47654662 rs10485315 A G 2893.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=7.315;ClippingRankSum=0.398;DB;DP=167;FS=1.004;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.357;POSITIVE_TRAIN_SITE;QD=17.33;ReadPosRankSum=2.188;SOR=0.957;VQSLOD=2.61;culprit=FS GT:AD:DP:GQ:PL 0/1:84,83:167:99:2922,0,2748
chr6 47654742 rs9296573 A T 4359.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.866;ClippingRankSum=0.983;DB;DP=296;FS=5.331;MLEAC=1;MLEAF=0.500;MQ=59.80;MQ0=0;MQRankSum=0.493;POSITIVE_TRAIN_SITE;QD=14.73;ReadPosRankSum=-1.261;SOR=0.468;VQSLOD=1.31;culprit=DP GT:AD:DP:GQ:PL 0/1:143,153:296:99:4388,0,4431
chr6 47654817 rs1556133 C A 3193.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-6.266;ClippingRankSum=-0.767;DB;DP=141;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.607;POSITIVE_TRAIN_SITE;QD=22.65;ReadPosRankSum=0.439;SOR=0.716;VQSLOD=2.57;culprit=FS GT:AD:DP:GQ:PL 0/1:57,84:141:99:3222,0,2060
chr6 47654831 rs1556132 A G 3144.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.124;ClippingRankSum=-0.737;DB;DP=121;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.550;POSITIVE_TRAIN_SITE;QD=25.99;ReadPosRankSum=0.045;SOR=0.730;VQSLOD=2.91;culprit=FS GT:AD:DP:GQ:PL 0/1:47,74:121:99:3173,0,1780
chr6 47654864 rs1556131 T G 1356.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.916;ClippingRankSum=1.761;DB;DP=69;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.023;POSITIVE_TRAIN_SITE;QD=19.66;ReadPosRankSum=-0.030;SOR=0.980;VQSLOD=4.41;culprit=FS GT:AD:DP:GQ:PL 0/1:30,39:69:99:1385,0,976
chr6 47661115 rs6901702 T C 90.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.09;SOR=2.833;VQSLOD=7.91;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:118,9,0
chr6 47661248 rs36010404 AG A 335.73 PASS AC=2;AF=1.00;AN=2;DB;DP=12;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.98;SOR=4.977;VQSLOD=6.17;culprit=FS GT:AD:DP:GQ:PL 1/1:0,11:11:33:373,33,0
chr6 47661260 rs200900695 AC A 126.76 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.589;ClippingRankSum=-0.354;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=50.65;MQ0=0;MQRankSum=-1.768;POSITIVE_TRAIN_SITE;QD=7.92;ReadPosRankSum=1.061;SOR=2.494;VQSLOD=4.52;culprit=FS GT:AD:DP:GQ:PL 0/1:2,9:11:22:164,0,22
chr6 47661387 rs9395311 A G 2320.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.015;ClippingRankSum=-0.577;DB;DP=139;FS=8.901;MLEAC=1;MLEAF=0.500;MQ=59.67;MQ0=0;MQRankSum=-0.615;POSITIVE_TRAIN_SITE;QD=16.70;ReadPosRankSum=2.635;SOR=0.237;VQSLOD=1.11;culprit=FS GT:AD:DP:GQ:PL 0/1:64,75:139:99:2349,0,1921
chr6 47675922 rs16876334 C T 1527.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.988;ClippingRankSum=-0.373;DB;DP=82;FS=4.427;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=2.181;POSITIVE_TRAIN_SITE;QD=18.63;ReadPosRankSum=0.624;SOR=1.413;VQSLOD=1.23;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:37,45:82:99:1556,0,1063
chr6 47676150 rs9369737 C T 269.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.291;ClippingRankSum=1.732;DB;DP=23;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.283;POSITIVE_TRAIN_SITE;QD=11.73;ReadPosRankSum=-0.346;SOR=0.368;VQSLOD=5.18;culprit=FS GT:AD:DP:GQ:PL 0/1:14,9:23:99:298,0,504
chr6 47678455 rs11356177 CT C 1687.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.012;ClippingRankSum=-0.222;DB;DP=162;FS=0.656;MLEAC=1;MLEAF=0.500;MQ=60.33;MQ0=0;MQRankSum=1.477;POSITIVE_TRAIN_SITE;QD=10.42;ReadPosRankSum=0.632;SOR=0.809;VQSLOD=1.77;culprit=FS GT:AD:DP:GQ:PL 0/1:80,76:156:99:1725,0,2007
chr6 47678678 rs944056 C G 3493.77 PASS AC=2;AF=1.00;AN=2;DB;DP=91;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.59;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.34;SOR=2.758;VQSLOD=7.40;culprit=FS GT:AD:DP:GQ:PL 1/1:0,90:90:99:3522,271,0
chr6 47678718 rs1318391 C G 857.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.618;ClippingRankSum=0.693;DB;DP=61;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.080;POSITIVE_TRAIN_SITE;QD=14.06;ReadPosRankSum=0.970;SOR=0.439;VQSLOD=5.75;culprit=FS GT:AD:DP:GQ:PL 0/1:35,26:61:99:886,0,1329
chr6 47678848 rs199503700 CAA C 43.74 PASS AC=1;AF=0.500;AN=2;DB;DP=2;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.87;SOR=2.303;VQSLOD=8.58;culprit=FS GT:AD:DP:GQ:PL 0/1:0,2:2:25:81,0,25
chr6 47678861 rs9381602 A G 52.78 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=51.77;MQ0=0;MQRankSum=0.736;QD=17.59;ReadPosRankSum=0.736;SOR=1.179;VQSLOD=4.93;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:25:81,0,25
chr6 47680450 rs871654 A C 516.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.618;ClippingRankSum=-0.634;DB;DP=21;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.410;POSITIVE_TRAIN_SITE;QD=24.61;ReadPosRankSum=0.634;SOR=1.508;VQSLOD=5.59;culprit=FS GT:AD:DP:GQ:PL 0/1:7,14:21:99:545,0,211
chr6 47681494 rs6916562 T C 3414.77 PASS AC=2;AF=1.00;AN=2;DB;DP=86;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.92;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.90;SOR=5.235;VQSLOD=6.11;culprit=FS GT:AD:DP:GQ:PL 1/1:0,86:86:99:3443,259,0
chr6 47682604 rs9369738 A C 6287.77 PASS AC=2;AF=1.00;AN=2;DB;DP=181;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.74;SOR=1.468;VQSLOD=6.07;culprit=QD GT:AD:DP:GQ:PL 1/1:0,179:179:99:6316,538,0
chr6 47682949 rs16876369 C T 1708.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.057;ClippingRankSum=-0.481;DB;DP=110;FS=7.189;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=2.072;POSITIVE_TRAIN_SITE;QD=15.53;ReadPosRankSum=0.146;SOR=1.458;VQSLOD=1.58;culprit=FS GT:AD:DP:GQ:PL 0/1:54,56:110:99:1737,0,1465
chr6 47683057 rs41452951 A G 376.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.298;ClippingRankSum=-0.209;DB;DP=28;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.17;MQ0=0;MQRankSum=0.070;POSITIVE_TRAIN_SITE;QD=13.46;ReadPosRankSum=0.070;SOR=0.460;VQSLOD=5.39;culprit=FS GT:AD:DP:GQ:PL 0/1:16,12:28:99:405,0,546
chr6 47684591 rs1360157 G A 2096.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.035;ClippingRankSum=0.291;DB;DP=146;FS=1.305;MLEAC=1;MLEAF=0.500;MQ=59.71;MQ0=0;MQRankSum=0.615;POSITIVE_TRAIN_SITE;QD=14.36;ReadPosRankSum=0.971;SOR=0.572;VQSLOD=3.15;culprit=DP GT:AD:DP:GQ:PL 0/1:74,71:145:99:2125,0,2159
chr6 47686101 rs6914013 T C 9061.77 PASS AC=2;AF=1.00;AN=2;DB;DP=255;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.93;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.19;SOR=1.281;VQSLOD=5.11;culprit=FS GT:AD:DP:GQ:PL 1/1:0,254:254:99:9090,763,0
chr6 47686235 rs11754756 C A 1895.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.892;ClippingRankSum=1.540;DB;DP=110;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.66;MQ0=0;MQRankSum=0.867;POSITIVE_TRAIN_SITE;QD=17.23;ReadPosRankSum=-0.771;SOR=0.905;VQSLOD=3.88;culprit=FS GT:AD:DP:GQ:PL 0/1:50,60:110:99:1924,0,1695
chr6 47686397 rs11476874 AT A 63.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.358;ClippingRankSum=-0.358;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=62.13;MQ0=0;MQRankSum=0.358;POSITIVE_TRAIN_SITE;QD=12.75;ReadPosRankSum=0.358;SOR=1.022;VQSLOD=6.60;culprit=FS GT:AD:DP:GQ:PL 0/1:2,3:5:66:101,0,66
chr6 47690579 rs1329522 T C 91.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.76;SOR=0.693;VQSLOD=6.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:119,12,0
chr6 47690601 rs35597357 T C 29.77 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=1.026;ClippingRankSum=-1.026;DB;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.026;QD=7.44;ReadPosRankSum=0.000;SOR=0.693 GT:AD:DP:GQ:PL 0/1:2,2:4:37:58,0,37
chr6 47690613 rs1329523 G A 81.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.09;SOR=1.179;VQSLOD=8.50;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:109,9,0
chr6 47696780 rs2282337 C T 36.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.380;ClippingRankSum=-0.720;DB;DP=6;FS=3.310;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.000;POSITIVE_TRAIN_SITE;QD=6.13;ReadPosRankSum=-0.720;SOR=2.303;VQSLOD=2.06;culprit=QD GT:AD:DP:GQ:PL 0/1:4,2:6:65:65,0,81
chr6 47698280 rs1329540 G A 94.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.43;SOR=1.179;VQSLOD=8.91;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:122,9,0
chr6 47698303 rs1329539 C T 94.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.43;SOR=1.179;VQSLOD=7.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:122,9,0
chr6 47703969 rs949680 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47707247 rs72864549 C T 37.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=18.87;SOR=2.303;VQSLOD=6.90;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:65,6,0
chr6 47708230 rs12199415 A G 96.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.09;SOR=1.179;VQSLOD=7.86;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:124,9,0
chr6 47708267 rs9473166 C T 93.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.09;SOR=1.179;VQSLOD=6.97;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:121,9,0
chr6 47712313 rs9349429 T G 41.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.87;SOR=2.303;VQSLOD=8.76;culprit=QD GT:AD:DP:GQ:PL 1/1:0,2:2:6:69,6,0
chr6 47714073 rs9367302 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47720533 rs61744507 G A 144.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.876;ClippingRankSum=-1.652;DB;DP=9;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.361;POSITIVE_TRAIN_SITE;QD=16.09;ReadPosRankSum=1.881;SOR=0.892;VQSLOD=5.73;culprit=FS GT:AD:DP:GQ:PL 0/1:4,5:9:99:173,0,134
chr6 47720824 rs2039141 A G 2982.77 PASS AC=2;AF=1.00;AN=2;DB;DP=82;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.72;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.60;SOR=1.697;VQSLOD=5.16;culprit=FS GT:AD:DP:GQ:PL 1/1:0,82:82:99:3011,247,0
chr6 47740398 rs1329529 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47746444 rs10485318 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47749539 rs9395320 A G 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=2.303;VQSLOD=9.35;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 47749728 rs7741473 T G 1371.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.498;ClippingRankSum=1.007;DB;DP=64;FS=3.910;MLEAC=1;MLEAF=0.500;MQ=58.91;MQ0=0;MQRankSum=0.168;POSITIVE_TRAIN_SITE;QD=21.43;ReadPosRankSum=-0.210;SOR=0.253;VQSLOD=2.29;culprit=QD GT:AD:DP:GQ:PL 0/1:23,41:64:99:1400,0,654
chr6 47754498 rs1329543 A G 352.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.647;ClippingRankSum=-0.208;DB;DP=26;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.052;POSITIVE_TRAIN_SITE;QD=13.57;ReadPosRankSum=0.052;SOR=0.446;VQSLOD=5.83;culprit=FS GT:AD:DP:GQ:PL 0/1:15,11:26:99:381,0,529
chr6 47754538 rs6900985 T C 166.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.859;ClippingRankSum=-1.156;DB;DP=17;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.653;POSITIVE_TRAIN_SITE;QD=9.81;ReadPosRankSum=0.653;SOR=0.293;VQSLOD=5.20;culprit=FS GT:AD:DP:GQ:PL 0/1:11,6:17:99:195,0,378
chr6 47763514 rs139235050 TCACACA T 98.25 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=44.10;MQ0=0;QD=19.65;SOR=2.833;VQSLOD=6.81;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 47808012 rs474725 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47822105 rs532671 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47826378 rs476873 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47841953 rs4715047 G T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47845813 rs1887899 G T 171.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.38;SOR=3.611;VQSLOD=7.20;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:200,15,0
chr6 47847179 rs3799276 A G 11221.77 PASS AC=2;AF=1.00;AN=2;DB;DP=302;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.72;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.02;SOR=1.221;VQSLOD=2.80;culprit=FS GT:AD:DP:GQ:PL 1/1:0,301:301:99:11250,905,0
chr6 47847401 rs2068006 A G 6414.77 PASS AC=2;AF=1.00;AN=2;DB;DP=184;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.86;SOR=0.832;VQSLOD=4.02;culprit=QD GT:AD:DP:GQ:PL 1/1:0,182:182:99:6443,547,0
chr6 47847683 rs9367307 A T 3379.77 PASS AC=2;AF=1.00;AN=2;DB;DP=142;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.80;SOR=3.095;VQSLOD=3.37;culprit=FS GT:AD:DP:GQ:PL 1/1:0,121:121:99:3408,364,0
chr6 47862643 rs113155505 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47865882 rs4715053 G C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47869426 rs1360080 A G 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=2.303;VQSLOD=9.52;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 47869448 rs1360081 G A 125.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.26;SOR=1.609;VQSLOD=7.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:153,12,0
chr6 47871871 rs13194591 C T 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.67;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 47871877 . A G 62.74 PASS AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.37;SOR=0.693;VQSLOD=6.51;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 47927739 . A T 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47941339 rs2753188 G A 61.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.43;SOR=1.179;VQSLOD=6.28;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:89,9,0
chr6 47954722 rs2145363 C A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 47977018 rs2753194 C A 684.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.070;ClippingRankSum=1.380;DB;DP=36;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.36;MQ0=0;MQRankSum=0.995;POSITIVE_TRAIN_SITE;QD=19.02;ReadPosRankSum=1.508;SOR=1.061;VQSLOD=4.96;culprit=FS GT:AD:DP:GQ:PL 0/1:15,21:36:99:713,0,543
chr6 47977136 rs45599036 C T 79.78 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.727;ClippingRankSum=0.727;DB;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.727;POSITIVE_TRAIN_SITE;QD=19.94;ReadPosRankSum=0.727;SOR=1.609;VQSLOD=5.45;culprit=FS GT:AD:DP:GQ:PL 0/1:1,3:4:26:108,0,26
chr6 48005879 rs12205869 G A 45.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.87;SOR=0.693;VQSLOD=9.01;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:73,6,0
chr6 48009812 . A C 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=-0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:33:40,0,33
chr6 48015295 rs618543 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48015693 rs332554 A G 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=7.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 48026377 rs647942 A G 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=2.303;VQSLOD=9.17;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 48032884 rs75735764 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48036051 rs201541883 A C 779.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-6.322;ClippingRankSum=-0.178;DB;DP=120;FS=165.662;MLEAC=1;MLEAF=0.500;MQ=53.95;MQ0=0;MQRankSum=-0.683;QD=6.50;ReadPosRankSum=-4.265;SOR=8.379;VQSLOD=-6.204e+01;culprit=FS GT:AD:DP:GQ:PL 0/1:52,65:117:99:808,0,1315
chr6 48083008 rs6908563 G A 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=0.693;VQSLOD=8.84;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 48117685 rs12523977 C G 501.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.424;ClippingRankSum=0.073;DB;DP=38;FS=1.785;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.833;POSITIVE_TRAIN_SITE;QD=13.20;ReadPosRankSum=-2.675;SOR=1.329;VQSLOD=1.85;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:20,18:38:99:530,0,640
chr6 48131753 rs1331118 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48172099 . G GGGA 46.70 PASS AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=65.19;MQ0=0;QD=23.35;SOR=0.693;VQSLOD=5.94;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 48195386 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48214766 rs2456916 A G 38.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=12.92;ReadPosRankSum=-0.736;SOR=1.179;VQSLOD=5.88;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:33:67,0,33
chr6 48214812 rs2503669 C G 78.77 VQSRTrancheSNP99.00to99.90 AC=1;AF=0.500;AN=2;BaseQRankSum=1.754;ClippingRankSum=0.937;DB;DP=7;FS=15.441;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.550;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=11.25;ReadPosRankSum=1.300;SOR=2.775;VQSLOD=0.030;culprit=FS GT:AD:DP:GQ:PL 0/1:4,3:7:99:107,0,141
chr6 48214977 rs2503670 A G 44.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.026;ClippingRankSum=0.000;DB;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.026;POSITIVE_TRAIN_SITE;QD=11.19;ReadPosRankSum=1.026;SOR=0.693;VQSLOD=6.40;culprit=FS GT:AD:DP:GQ:PL 0/1:2,2:4:71:73,0,71
chr6 48215008 rs2496375 G A 41.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.000;ClippingRankSum=-1.026;DB;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.000;POSITIVE_TRAIN_SITE;QD=10.44;ReadPosRankSum=1.026;SOR=0.693;VQSLOD=6.07;culprit=FS GT:AD:DP:GQ:PL 0/1:2,2:4:70:70,0,71
chr6 48225108 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48262773 rs13202212 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48282517 rs11758955 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48282542 rs545090 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48396334 rs9473361 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48445933 rs1121646 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48448275 rs9473387 A T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48449928 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48450548 rs9784854 G A 47.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.87;SOR=2.303;VQSLOD=7.59;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 48456067 rs148792649 CAGTCTTGAAGACAAAATGCTAACATGTAATAAGAAAATATTTGA C 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;QD=26.85;SOR=2.303;VQSLOD=7.01;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 48456290 rs7754822 G T 18.59 LowQual AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=29.00;MQ0=0;QD=18.59;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:45,3,0
chr6 48456315 rs9473391 A T 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=2.303;VQSLOD=9.25;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 48464593 rs9473403 G T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48467616 rs12206390 A G 65.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.76;SOR=1.179;VQSLOD=8.09;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:93,9,0
chr6 48468120 rs6915049 A T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48592097 . G A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48596846 rs2912621 T G 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=8.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 48609036 rs963049 G C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48615474 rs2433657 A T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48750072 rs2495881 T C 75.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.09;SOR=2.833;VQSLOD=7.98;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:103,9,0
chr6 48792612 rs2495863 C T 62.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.76;SOR=1.179;VQSLOD=8.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:90,9,0
chr6 48811854 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48825657 rs1938202 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48899692 rs10948458 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 48919773 rs16878430 G A 235.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.540;ClippingRankSum=-0.212;DB;DP=16;FS=4.467;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.318;POSITIVE_TRAIN_SITE;QD=14.74;ReadPosRankSum=-1.059;SOR=0.525;VQSLOD=3.12;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:7,9:16:99:264,0,243
chr6 48920376 rs12204534 C T 96.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.09;SOR=2.833;VQSLOD=7.58;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:124,9,0
chr6 49011686 rs35984632 A AT 50.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=63.51;MQ0=0;QD=16.75;SOR=1.179;VQSLOD=7.07;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:87,9,0
chr6 49022228 rs6458657 C A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49036510 rs12194577 T A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49045630 rs9367346 A T 789.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.471;ClippingRankSum=-1.379;DB;DP=53;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.098;POSITIVE_TRAIN_SITE;QD=14.90;ReadPosRankSum=2.233;SOR=0.793;VQSLOD=5.52;culprit=FS GT:AD:DP:GQ:PL 0/1:27,26:53:99:818,0,792
chr6 49052341 rs6458676 A G 38.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.231;ClippingRankSum=0.358;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.358;POSITIVE_TRAIN_SITE;QD=7.75;ReadPosRankSum=-0.358;SOR=1.179;VQSLOD=5.43;culprit=QD GT:AD:DP:GQ:PL 0/1:2,3:5:34:67,0,34
chr6 49083404 . A G 43.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.026;ClippingRankSum=0.000;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.026;QD=10.94;ReadPosRankSum=1.026;SOR=0.693;VQSLOD=3.54;culprit=FS GT:AD:DP:GQ:PL 0/1:2,2:4:61:72,0,61
chr6 49169185 rs113197207 C CTTCT 77.25 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=65.19;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.53;SOR=0.693;VQSLOD=8.18;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:9:114,9,0
chr6 49199384 rs570913 T G 15.65 LowQual AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=15.65;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:42,3,0
chr6 49209747 rs9463466 G T 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=0.693;VQSLOD=8.39;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 49212193 rs492254 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49218084 rs7756663 G A 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.37;SOR=0.693;VQSLOD=6.88;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 49218093 rs11453208 A AT 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=26.85;SOR=0.693;VQSLOD=6.14;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 49397107 . A G 12.06 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:26:40,0,26
chr6 49414272 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49415351 . TA T 91.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.540;ClippingRankSum=-0.501;DP=115;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=54.85;MQ0=0;MQRankSum=0.642;POSITIVE_TRAIN_SITE;QD=0.80;ReadPosRankSum=0.146;SOR=0.653;VQSLOD=3.81;culprit=FS GT:AD:DP:GQ:PL 0/1:57,17:74:99:129,0,1146
chr6 49437853 rs11333073 AT A 27.74 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=0.412;ClippingRankSum=-0.483;DB;DP=50;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.69;MQ0=0;MQRankSum=0.985;QD=0.55;ReadPosRankSum=0.770;SOR=0.976 GT:AD:DP:GQ:PL 0/1:38,8:46:65:65,0,808
chr6 49456545 rs2501965 G A 816.77 PASS AC=2;AF=1.00;AN=2;DB;DP=22;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=33.39;SOR=6.273;VQSLOD=4.58;culprit=FS GT:AD:DP:GQ:PL 1/1:0,22:22:66:845,66,0
chr6 49459978 rs2501968 A G 4668.77 PASS AC=2;AF=1.00;AN=2;DB;DP=126;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.08;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.08;SOR=1.981;VQSLOD=6.45;culprit=FS GT:AD:DP:GQ:PL 1/1:0,124:124:99:4697,373,0
chr6 49460152 rs1471539 A G 177.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.65;SOR=3.611;VQSLOD=5.84;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:206,15,0
chr6 49479750 rs13193063 T C 340.77 PASS AC=2;AF=1.00;AN=2;DB;DP=12;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.40;SOR=1.445;VQSLOD=6.20;culprit=FS GT:AD:DP:GQ:PL 1/1:0,12:12:36:369,36,0
chr6 49479775 rs1480615 A T 224.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.11;SOR=2.584;VQSLOD=7.65;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:253,21,0
chr6 49480339 rs9463493 A G 64.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.43;SOR=1.179;VQSLOD=8.26;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:92,9,0
chr6 49494241 rs9367359 A G 3361.77 PASS AC=2;AF=1.00;AN=2;DB;DP=95;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.51;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.60;SOR=0.826;VQSLOD=7.14;culprit=FS GT:AD:DP:GQ:PL 1/1:0,94:94:99:3390,283,0
chr6 49495862 rs6458696 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49497461 rs2396905 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49508103 rs9463500 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49515525 rs4715136 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49518914 rs6919674 C G 44.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.37;SOR=2.303;VQSLOD=8.57;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:72,6,0
chr6 49522920 . T A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49528183 rs6899583 A G 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=7.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 49537956 rs36081197 T A 42.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=21.37;SOR=0.693;VQSLOD=6.79;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:70,6,0
chr6 49559793 rs10948514 G T 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=2.303;VQSLOD=8.84;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 49596219 rs4711931 T C 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=0.693;VQSLOD=8.20;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 49646966 rs7763840 T C 66.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.09;SOR=1.179;VQSLOD=8.21;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:94,9,0
chr6 49650193 rs148454607 CCCT C 84.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.727;ClippingRankSum=-0.727;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=62.13;MQ0=0;MQRankSum=0.727;POSITIVE_TRAIN_SITE;QD=16.95;ReadPosRankSum=0.727;SOR=0.916;VQSLOD=6.11;culprit=FS GT:AD:DP:GQ:PL 0/1:1,3:4:37:122,0,37
chr6 49660418 rs12624 A C 1647.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.101;ClippingRankSum=-1.338;DB;DP=95;FS=5.883;MLEAC=1;MLEAF=0.500;MQ=59.76;MQ0=0;MQRankSum=-1.323;POSITIVE_TRAIN_SITE;QD=17.34;ReadPosRankSum=0.011;SOR=1.333;VQSLOD=1.55;culprit=FS GT:AD:DP:GQ:PL 0/1:42,53:95:99:1676,0,1201
chr6 49663465 rs2248263 G A 603.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.236;ClippingRankSum=0.133;DB;DP=33;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.43;MQ0=0;MQRankSum=0.399;POSITIVE_TRAIN_SITE;QD=18.30;ReadPosRankSum=0.589;SOR=0.957;VQSLOD=5.69;culprit=FS GT:AD:DP:GQ:PL 0/1:14,18:32:99:632,0,410
chr6 49665120 rs10548881 GGT G 34.71 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=63.51;MQ0=0;POSITIVE_TRAIN_SITE;QD=11.57;SOR=2.303;VQSLOD=8.54;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:71,6,0
chr6 49666381 rs515257 G A 145.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.886;ClippingRankSum=-1.798;DB;DP=19;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.395;POSITIVE_TRAIN_SITE;QD=7.67;ReadPosRankSum=1.184;SOR=0.223;VQSLOD=5.06;culprit=QD GT:AD:DP:GQ:PL 0/1:13,6:19:99:174,0,478
chr6 49668405 rs57295760 T G 1149.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-6.101;ClippingRankSum=0.570;DB;DP=174;FS=322.757;MLEAC=1;MLEAF=0.500;MQ=47.79;MQ0=0;MQRankSum=-5.344;QD=6.61;ReadPosRankSum=-6.450;SOR=9.149;VQSLOD=-2.485e+02;culprit=FS GT:AD:DP:GQ:PL 0/1:77,96:173:99:1178,0,1978
chr6 49676536 rs699954 C T 48.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.37;SOR=0.693;VQSLOD=8.45;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:76,6,0
chr6 49693598 rs1068276 G A 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.41;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 49693612 rs35883674 CT C 93.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.08;SOR=1.179;VQSLOD=8.80;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:130,9,0
chr6 49695232 rs510770 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49701439 rs1864312 C A 1555.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.745;ClippingRankSum=0.346;DB;DP=113;FS=1.849;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.795;POSITIVE_TRAIN_SITE;QD=13.77;ReadPosRankSum=1.613;SOR=0.978;VQSLOD=2.84;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:63,49:112:99:1584,0,2066
chr6 49701523 rs495335 A G 1861.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.084;ClippingRankSum=-0.565;DB;DP=149;FS=0.622;MLEAC=1;MLEAF=0.500;MQ=59.85;MQ0=0;MQRankSum=-0.400;POSITIVE_TRAIN_SITE;QD=12.50;ReadPosRankSum=3.925;SOR=0.775;VQSLOD=2.06;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:84,65:149:99:1890,0,2674
chr6 49703027 rs3823210 G T 73.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.231;ClippingRankSum=-0.358;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.358;POSITIVE_TRAIN_SITE;QD=14.75;ReadPosRankSum=-1.231;SOR=1.022;VQSLOD=6.26;culprit=FS GT:AD:DP:GQ:PL 0/1:2,3:5:72:102,0,72
chr6 49787315 rs5876131 G GT 25.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=12.86;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:62,6,0
chr6 49798102 . C CAGAG 53.70 PASS AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=26.85;SOR=0.693;VQSLOD=4.57;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 49803370 rs1652094 A G 290.78 PASS AC=2;AF=1.00;AN=2;DB;DP=8;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.34;SOR=4.407;VQSLOD=6.61;culprit=FS GT:AD:DP:GQ:PL 1/1:0,8:8:24:319,24,0
chr6 49807422 rs7753886 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49815873 rs373553362 AT A 85.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.243;ClippingRankSum=-0.384;DB;DP=85;FS=2.397;MLEAC=1;MLEAF=0.500;MQ=57.35;MQ0=0;MQRankSum=1.200;QD=1.01;ReadPosRankSum=0.512;SOR=1.508;VQSLOD=1.09;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:52,14:66:99:123,0,1132
chr6 49818670 rs780782 T C 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=0.693;VQSLOD=8.96;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 49835335 rs1084051 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 49858594 rs2153575 C T 361.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.037;ClippingRankSum=1.977;DB;DP=21;FS=4.722;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.037;POSITIVE_TRAIN_SITE;QD=17.23;ReadPosRankSum=-0.336;SOR=0.127;VQSLOD=3.26;culprit=FS GT:AD:DP:GQ:PL 0/1:7,14:21:99:390,0,186
chr6 49913981 rs7760672 C T 1758.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.016;ClippingRankSum=0.747;DB;DP=119;FS=1.762;MLEAC=1;MLEAF=0.500;MQ=59.81;MQ0=0;MQRankSum=0.359;POSITIVE_TRAIN_SITE;QD=14.78;ReadPosRankSum=-0.178;SOR=0.963;VQSLOD=3.22;culprit=DP GT:AD:DP:GQ:PL 0/1:58,61:119:99:1787,0,1869
chr6 49917264 rs9369926 A C 219.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.074;ClippingRankSum=-1.220;DB;DP=17;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.732;POSITIVE_TRAIN_SITE;QD=12.93;ReadPosRankSum=1.317;SOR=0.425;VQSLOD=5.32;culprit=FS GT:AD:DP:GQ:PL 0/1:10,7:17:99:248,0,336
chr6 49956510 . C T 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50045305 rs1324514 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50064359 rs9395549 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50087752 rs6458721 A C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50155014 . T A 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;QD=4.02;ReadPosRankSum=-0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:29:40,0,29
chr6 50155159 rs700005 A C 44.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.37;SOR=0.693;VQSLOD=8.21;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:72,6,0
chr6 50158759 rs142079970 G GT 21.73 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.87;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:58,6,0
chr6 50164244 rs9369936 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50169217 rs148924218 C CT 19.75 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=9.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:56,6,0
chr6 50197539 rs6910805 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50222518 rs1340844 T C 62.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.76;SOR=1.179;VQSLOD=7.92;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:90,9,0
chr6 50225593 rs9349526 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50230041 rs1596084 G C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50230068 rs7756066 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50231408 rs6903689 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50261294 rs2792835 T C 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=9.19;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 50265655 rs5876165 GA G 21.73 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=65.19;MQ0=0;QD=10.87;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:58,6,0
chr6 50294995 rs10637978 A ATAATT 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.85;SOR=2.303;VQSLOD=8.39;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 50298895 rs7775569 T A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50325057 rs2131281 G A 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=2.303;VQSLOD=9.10;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 50362460 rs7745382 C A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50364398 rs6930590 G T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50366720 rs7738992 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50650700 rs537362 G C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50805942 rs2817404 T G 938.77 PASS AC=2;AF=1.00;AN=2;DB;DP=23;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.99;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.85;SOR=6.358;VQSLOD=6.90;culprit=FS GT:AD:DP:GQ:PL 1/1:0,23:23:69:967,69,0
chr6 50810497 rs1569778 T C 85.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.43;SOR=2.833;VQSLOD=7.71;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:113,9,0
chr6 50811241 rs2982621 T A 306.78 PASS AC=2;AF=1.00;AN=2;DB;DP=9;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=34.09;SOR=4.615;VQSLOD=5.67;culprit=FS GT:AD:DP:GQ:PL 1/1:0,9:9:27:335,27,0
chr6 50812003 rs35732696 TA T 11.99 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=4.00;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:48,6,0
chr6 50824804 rs2817423 T A 1009.77 PASS AC=2;AF=1.00;AN=2;DB;DP=27;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.72;SOR=6.666;VQSLOD=5.96;culprit=FS GT:AD:DP:GQ:PL 1/1:0,27:27:81:1038,81,0
chr6 50866066 rs11754505 C T 130.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.51;SOR=1.609;VQSLOD=7.49;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:158,12,0
chr6 50880250 rs61678343 C CT 116.87 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.73;MQ0=0;QD=16.70;SOR=3.611;VQSLOD=5.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:154,15,0
chr6 50886019 rs75756982 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=36.50;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 50966615 rs557411 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51003728 rs140549964 C A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=52.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51003757 . T A 62.74 PASS AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=52.00;MQ0=0;QD=31.37;SOR=0.693;VQSLOD=6.51;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51003762 rs145721769 T A 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=52.00;MQ0=0;QD=31.37;SOR=0.693;VQSLOD=6.99;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51162298 rs1409888 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51171408 rs1327265 G A 95.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.76;SOR=1.179;VQSLOD=9.33;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:123,9,0
chr6 51173538 rs2256042 G A 107.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.75;SOR=1.179;VQSLOD=8.29;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 51173541 rs2256041 A G 107.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.80;SOR=1.179;VQSLOD=8.71;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:135,9,0
chr6 51199224 rs2796913 T C 136.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.38;SOR=1.981;VQSLOD=6.30;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:165,15,0
chr6 51274751 . CTT C 59.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.550;ClippingRankSum=1.300;DP=11;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=41.10;MQ0=0;MQRankSum=-0.937;QD=5.43;ReadPosRankSum=0.550;SOR=0.223;VQSLOD=4.67;culprit=FS GT:AD:DP:GQ:PL 0/1:3,4:7:51:97,0,51
chr6 51317602 rs9367432 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.44;MQ0=0;QD=7.26;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51329696 rs3928895 G C 93.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.09;SOR=2.833;VQSLOD=8.17;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:121,9,0
chr6 51339492 rs4090367 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51434479 rs4997737 A G 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.32;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51434483 rs181171044 A T 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.26;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51446475 rs2495854 T A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51492046 rs9474033 T G 2499.77 PASS AC=2;AF=1.00;AN=2;DB;DP=62;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.45;SOR=8.287;VQSLOD=5.75;culprit=FS GT:AD:DP:GQ:PL 1/1:0,62:62:99:2528,187,0
chr6 51492164 rs9370040 T A 258.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.68;SOR=4.174;VQSLOD=6.27;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:287,21,0
chr6 51503597 . C CAAA 667.73 VQSRTrancheINDEL99.00to99.90 AC=1;AF=0.500;AN=2;BaseQRankSum=-0.313;ClippingRankSum=-1.388;DP=300;FS=6.792;MLEAC=1;MLEAF=0.500;MQ=49.95;MQ0=0;MQRankSum=-2.762;NEGATIVE_TRAIN_SITE;QD=2.23;ReadPosRankSum=-2.418;SOR=0.016;VQSLOD=-2.167e+00;culprit=FS GT:AD:DP:GQ:PL 0/1:77,45:122:99:705,0,1544
chr6 51512707 rs2580009 T C 944.77 PASS AC=2;AF=1.00;AN=2;DB;DP=26;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.11;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.22;SOR=6.593;VQSLOD=5.86;culprit=FS GT:AD:DP:GQ:PL 1/1:0,26:26:78:973,78,0
chr6 51521787 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51523739 rs115072237 T C 6637.77 PASS AC=2;AF=1.00;AN=2;DB;DP=176;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.87;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.68;SOR=2.371;VQSLOD=5.00;culprit=FS GT:AD:DP:GQ:PL 1/1:0,175:175:99:6666,526,0
chr6 51551346 rs557398 T C 57.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.87;SOR=0.693;VQSLOD=9.05;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:85,6,0
chr6 51590078 rs1326610 T C 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=2.303;VQSLOD=8.76;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 51604677 . C T 956.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.698;ClippingRankSum=-0.058;DP=66;FS=6.929;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.341;QD=14.50;ReadPosRankSum=1.938;SOR=0.066;VQSLOD=0.460;culprit=FS GT:AD:DP:GQ:PL 0/1:36,30:66:99:985,0,1262
chr6 51606225 rs142928645 C T 114.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.000;ClippingRankSum=-1.380;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.380;POSITIVE_TRAIN_SITE;QD=19.13;ReadPosRankSum=0.720;SOR=1.329;VQSLOD=4.76;culprit=FS GT:AD:DP:GQ:PL 0/1:2,4:6:59:143,0,59
chr6 51611733 rs200125913 A C 194.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-2.113;ClippingRankSum=1.133;DB;DP=24;FS=9.938;MLEAC=1;MLEAF=0.500;MQ=56.04;MQ0=0;MQRankSum=-0.153;NEGATIVE_TRAIN_SITE;QD=8.12;ReadPosRankSum=0.643;SOR=3.990;VQSLOD=-1.655e+00;culprit=QD GT:AD:DP:GQ:PL 0/1:8,16:24:99:223,0,155
chr6 51617800 rs1326607 A G 332.77 PASS AC=2;AF=1.00;AN=2;DB;DP=10;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.28;SOR=4.804;VQSLOD=6.82;culprit=FS GT:AD:DP:GQ:PL 1/1:0,10:10:30:361,30,0
chr6 51634407 . T C 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51640751 rs3920621 C G 1527.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.616;ClippingRankSum=-0.475;DB;DP=114;FS=5.314;MLEAC=1;MLEAF=0.500;MQ=59.67;MQ0=0;MQRankSum=-1.120;POSITIVE_TRAIN_SITE;QD=13.40;ReadPosRankSum=-0.393;SOR=0.217;VQSLOD=1.32;culprit=FS GT:AD:DP:GQ:PL 0/1:63,49:112:99:1556,0,2311
chr6 51649062 rs11435548 G GT 58.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=19.42;SOR=1.179;VQSLOD=7.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:95,9,0
chr6 51649079 rs4715232 A G 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=0.693;VQSLOD=7.40;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 51652585 rs1326561 A G 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=2.303;VQSLOD=7.54;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51652595 rs1326562 T G 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=2.303;VQSLOD=8.18;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51655796 rs6904634 T C 99.28 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.93;SOR=2.303;VQSLOD=6.99;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:9:127,9,0
chr6 51655803 rs6924716 C T 99.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.09;SOR=2.833;VQSLOD=7.69;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:127,9,0
chr6 51656236 rs7765455 G T 1483.77 PASS AC=2;AF=1.00;AN=2;DB;DP=40;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.49;SOR=3.611;VQSLOD=5.62;culprit=FS GT:AD:DP:GQ:PL 1/1:0,40:40:99:1512,120,0
chr6 51656388 rs4715233 A G 93.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.09;SOR=2.833;VQSLOD=8.93;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:121,9,0
chr6 51664791 rs1980834 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51664816 rs2148459 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51671321 rs1326584 T A 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=7.93;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 51671350 rs4470847 C G 66.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.09;SOR=1.179;VQSLOD=9.01;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:94,9,0
chr6 51673939 rs1326588 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51706167 rs10648630 C CCCTTT 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=17.90;SOR=0.693;VQSLOD=8.28;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51712492 rs9370067 A T 1705.77 PASS AC=2;AF=1.00;AN=2;DB;DP=42;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.14;SOR=7.523;VQSLOD=6.66;culprit=FS GT:AD:DP:GQ:PL 1/1:0,42:42:99:1734,126,0
chr6 51718857 rs1831015 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51720838 rs9349603 T C 7371.77 PASS AC=2;AF=1.00;AN=2;DB;DP=189;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.82;SOR=2.858;VQSLOD=4.99;culprit=FS GT:AD:DP:GQ:PL 1/1:0,185:185:99:7400,557,0
chr6 51720872 rs7452724 A G 6199.77 PASS AC=2;AF=1.00;AN=2;DB;DP=161;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.66;SOR=3.188;VQSLOD=6.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,161:161:99:6228,484,0
chr6 51723015 rs9370074 G A 50.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.37;SOR=2.303;VQSLOD=7.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:78,6,0
chr6 51732598 rs9382043 G A 2712.77 PASS AC=2;AF=1.00;AN=2;DB;DP=74;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.69;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.50;SOR=3.026;VQSLOD=5.85;culprit=FS GT:AD:DP:GQ:PL 1/1:0,74:74:99:2741,222,0
chr6 51732628 rs9382044 G A 3330.77 PASS AC=2;AF=1.00;AN=2;DB;DP=89;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.74;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.80;SOR=2.276;VQSLOD=6.28;culprit=FS GT:AD:DP:GQ:PL 1/1:0,89:89:99:3359,267,0
chr6 51735261 rs982874 G T 2752.77 PASS AC=2;AF=1.00;AN=2;DB;DP=73;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.49;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.40;SOR=4.558;VQSLOD=6.00;culprit=FS GT:AD:DP:GQ:PL 1/1:0,73:73:99:2781,220,0
chr6 51735613 rs2064871 T C 314.78 PASS AC=2;AF=1.00;AN=2;DB;DP=8;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.95;SOR=4.407;VQSLOD=6.77;culprit=FS GT:AD:DP:GQ:PL 1/1:0,8:8:24:343,24,0
chr6 51747589 rs6458801 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51750563 rs4711985 A T 498.77 PASS AC=2;AF=1.00;AN=2;DB;DP=13;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.32;SOR=5.283;VQSLOD=6.36;culprit=FS GT:AD:DP:GQ:PL 1/1:0,13:13:39:527,39,0
chr6 51757014 rs1321516 C T 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=8.44;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 51768630 rs141063789 CATATAT C 229.77 PASS AC=2;AF=1.00;AN=2;DB;DP=22;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=56.71;MQ0=0;POSITIVE_TRAIN_SITE;QD=10.44;SOR=2.303;VQSLOD=6.39;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:20:267,20,0
chr6 51791091 rs4711990 G T 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=8.23;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 51793425 rs5876244 C CA 44.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.35;SOR=0.693;VQSLOD=8.40;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0
chr6 51796751 rs3857602 G A 89.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.76;SOR=1.179;VQSLOD=5.58;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:117,9,0
chr6 51798753 rs1266888 G A 308.78 PASS AC=2;AF=1.00;AN=2;DB;DP=8;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.90;SOR=4.407;VQSLOD=6.30;culprit=FS GT:AD:DP:GQ:PL 1/1:0,8:8:24:337,24,0
chr6 51798760 rs1884953 T A 94.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.000;ClippingRankSum=-0.365;DB;DP=10;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.365;POSITIVE_TRAIN_SITE;QD=9.48;ReadPosRankSum=-0.365;SOR=0.412;VQSLOD=6.15;culprit=FS GT:AD:DP:GQ:PL 0/1:6,4:10:99:123,0,204
chr6 51799166 rs1266889 T C 1497.77 PASS AC=2;AF=1.00;AN=2;DB;DP=38;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.26;SOR=4.977;VQSLOD=5.51;culprit=FS GT:AD:DP:GQ:PL 1/1:0,37:37:99:1526,111,0
chr6 51800445 rs1266890 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51814216 rs4715264 C T 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.34;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51814217 rs1266913 A G 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 51844368 rs2435324 A G 48.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.37;SOR=0.693;VQSLOD=8.63;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:76,6,0
chr6 51856374 rs9463746 A G 45.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.87;SOR=2.303;VQSLOD=8.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:73,6,0
chr6 51875250 rs2435322 A C 4902.77 PASS AC=2;AF=1.00;AN=2;DB;DP=132;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.68;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.79;SOR=1.170;VQSLOD=5.57;culprit=FS GT:AD:DP:GQ:PL 1/1:0,130:130:99:4931,391,0
chr6 51882075 rs9349614 C G 29.77 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=1.067;ClippingRankSum=0.572;DB;DP=9;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.589;QD=3.31;ReadPosRankSum=0.572;SOR=0.169 GT:AD:DP:GQ:PL 0/1:6,2:8:58:58,0,201
chr6 51889483 rs45517932 G A 1402.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.623;ClippingRankSum=-0.441;DB;DP=91;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.758;QD=15.42;ReadPosRankSum=0.099;SOR=0.684;VQSLOD=3.39;culprit=FS GT:AD:DP:GQ:PL 0/1:47,44:91:99:1431,0,1559
chr6 51890823 rs9296669 G A 908.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.796;ClippingRankSum=-1.279;DB;DP=60;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.45;MQ0=0;MQRankSum=0.614;POSITIVE_TRAIN_SITE;QD=15.15;ReadPosRankSum=0.052;SOR=0.575;VQSLOD=5.85;culprit=FS GT:AD:DP:GQ:PL 0/1:30,30:60:99:937,0,937
chr6 51891011 rs2499480 T C 1469.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.480;ClippingRankSum=1.669;DB;DP=99;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.53;MQ0=0;MQRankSum=-0.671;POSITIVE_TRAIN_SITE;QD=14.85;ReadPosRankSum=0.425;SOR=0.787;VQSLOD=5.12;culprit=FS GT:AD:DP:GQ:PL 0/1:54,45:99:99:1498,0,1703
chr6 51913240 rs10948667 G A 2227.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.872;ClippingRankSum=0.978;DB;DP=133;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.127;POSITIVE_TRAIN_SITE;QD=16.75;ReadPosRankSum=0.314;SOR=0.691;VQSLOD=4.01;culprit=FS GT:AD:DP:GQ:PL 0/1:61,72:133:99:2256,0,2006
chr6 51914898 rs9395759 T C 962.77 PASS AC=2;AF=1.00;AN=2;DB;DP=27;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=54.65;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.45;SOR=5.211;VQSLOD=6.92;culprit=FS GT:AD:DP:GQ:PL 1/1:0,27:27:81:991,81,0
chr6 51914956 rs9370096 G A 738.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.924;ClippingRankSum=-1.239;DB;DP=57;FS=1.721;MLEAC=1;MLEAF=0.500;MQ=53.16;MQ0=0;MQRankSum=-2.997;POSITIVE_TRAIN_SITE;QD=12.96;ReadPosRankSum=0.567;SOR=1.274;VQSLOD=0.740;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:30,27:57:99:767,0,838
chr6 51917550 rs1896983 G A 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=0.693;VQSLOD=8.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 51923569 rs56342114 CTCTA C 188.84 PASS AC=2;AF=1.00;AN=2;DB;DP=12;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=15.74;SOR=3.611;VQSLOD=5.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:16:226,16,0
chr6 51924774 rs1896976 A G 11214.77 PASS AC=2;AF=1.00;AN=2;DB;DP=307;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.86;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.73;SOR=0.923;VQSLOD=3.90;culprit=FS GT:AD:DP:GQ:PL 1/1:0,306:306:99:11243,918,0
chr6 51927683 rs13198604 T C 130.79 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=0.736;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;POSITIVE_TRAIN_SITE;QD=21.80;ReadPosRankSum=0.736;SOR=0.941;VQSLOD=5.66;culprit=FS GT:AD:DP:GQ:PL 0/1:1,5:6:22:159,0,22
chr6 51930886 rs5876252 T TA 1123.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.558;ClippingRankSum=0.596;DB;DP=98;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=57.11;MQ0=0;MQRankSum=0.066;POSITIVE_TRAIN_SITE;QD=11.47;ReadPosRankSum=0.047;SOR=1.571;VQSLOD=5.61;culprit=FS GT:AD:DP:GQ:PL 0/1:14,49:63:99:1161,0,109
chr6 51935061 rs4711996 T G 632.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.75;SOR=5.670;VQSLOD=6.32;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:48:661,48,0
chr6 51935747 rs17576809 C T 1555.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.681;ClippingRankSum=0.579;DB;DP=78;FS=1.884;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.207;POSITIVE_TRAIN_SITE;QD=19.95;ReadPosRankSum=2.282;SOR=1.437;VQSLOD=1.66;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:34,44:78:99:1584,0,1003
chr6 51936846 rs3936986 T C 1197.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.520;ClippingRankSum=2.065;DB;DP=65;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.65;MQ0=0;MQRankSum=-0.165;POSITIVE_TRAIN_SITE;QD=18.43;ReadPosRankSum=-0.310;SOR=0.499;VQSLOD=5.41;culprit=FS GT:AD:DP:GQ:PL 0/1:29,36:65:99:1226,0,894
chr6 51938242 rs9474140 A G 2915.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.879;ClippingRankSum=-1.660;DB;DP=204;FS=1.266;MLEAC=1;MLEAF=0.500;MQ=59.55;MQ0=0;MQRankSum=0.616;POSITIVE_TRAIN_SITE;QD=14.29;ReadPosRankSum=0.116;SOR=0.846;VQSLOD=2.35;culprit=DP GT:AD:DP:GQ:PL 0/1:112,92:204:99:2944,0,3367
chr6 51944847 rs1892274 T C 1304.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.941;ClippingRankSum=0.488;DB;DP=91;FS=6.922;MLEAC=1;MLEAF=0.500;MQ=59.75;MQ0=0;MQRankSum=-0.933;POSITIVE_TRAIN_SITE;QD=14.34;ReadPosRankSum=0.242;SOR=2.140;VQSLOD=2.08;culprit=FS GT:AD:DP:GQ:PL 0/1:45,46:91:99:1333,0,1431
chr6 51946893 rs6458806 T C 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=2.303;VQSLOD=8.64;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 51947237 rs9474143 G A 5131.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.494;ClippingRankSum=0.221;DB;DP=273;FS=2.813;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.398;POSITIVE_TRAIN_SITE;QD=18.80;ReadPosRankSum=1.871;SOR=0.538;VQSLOD=1.29;culprit=DP GT:AD:DP:GQ:PL 0/1:114,158:272:99:5160,0,3305
chr6 51949862 rs9370097 A G 953.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.068;ClippingRankSum=-1.115;DB;DP=65;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.363;POSITIVE_TRAIN_SITE;QD=14.67;ReadPosRankSum=-0.917;SOR=0.505;VQSLOD=5.49;culprit=FS GT:AD:DP:GQ:PL 0/1:36,29:65:99:982,0,1231
chr6 51953191 rs6905678 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51963443 rs6914462 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 51971195 rs3997006 T C 91.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.43;SOR=2.833;VQSLOD=7.51;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:119,9,0
chr6 51997155 rs1892278 A C 327.78 PASS AC=2;AF=1.00;AN=2;DB;DP=9;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.88;SOR=3.056;VQSLOD=5.59;culprit=FS GT:AD:DP:GQ:PL 1/1:0,9:9:27:356,27,0
chr6 52054249 rs7747909 G A 105.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.421;ClippingRankSum=0.922;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=2.017;POSITIVE_TRAIN_SITE;QD=13.22;ReadPosRankSum=0.000;SOR=0.693;VQSLOD=4.45;culprit=FS GT:AD:DP:GQ:PL 0/1:4,4:8:99:134,0,134
chr6 52061133 rs11962054 A G 16.63 LowQual AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=16.63;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:43,3,0
chr6 52064989 rs11755816 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52065009 rs11751159 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52073500 rs4464776 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52075816 rs2397079 A G 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=0.693;VQSLOD=9.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 52085748 rs591274 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52111808 rs761167 C T 630.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.571;ClippingRankSum=-0.018;DB;DP=33;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.30;MQ0=0;MQRankSum=0.792;POSITIVE_TRAIN_SITE;QD=19.11;ReadPosRankSum=0.534;SOR=0.743;VQSLOD=5.64;culprit=FS GT:AD:DP:GQ:PL 0/1:13,20:33:99:659,0,402
chr6 52117224 rs604952 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52129484 rs2230240 C T 3990.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.023;ClippingRankSum=-0.723;DB;DP=236;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.012;POSITIVE_TRAIN_SITE;QD=16.91;ReadPosRankSum=2.682;SOR=0.712;VQSLOD=1.85;culprit=FS GT:AD:DP:GQ:PL 0/1:105,131:236:99:4019,0,2992
chr6 52129667 rs2307326 G A 917.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.356;ClippingRankSum=-0.312;DB;DP=53;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.791;POSITIVE_TRAIN_SITE;QD=17.32;ReadPosRankSum=-2.147;SOR=0.808;VQSLOD=3.93;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:25,28:53:99:946,0,873
chr6 52130745 rs6925229 T C 162.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.139;ClippingRankSum=1.898;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.488;POSITIVE_TRAIN_SITE;QD=10.17;ReadPosRankSum=0.597;SOR=0.340;VQSLOD=6.23;culprit=FS GT:AD:DP:GQ:PL 0/1:10,6:16:99:191,0,354
chr6 52131254 rs10807441 C T 1383.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.953;ClippingRankSum=0.770;DB;DP=83;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.223;POSITIVE_TRAIN_SITE;QD=16.67;ReadPosRankSum=0.269;SOR=1.534;VQSLOD=5.05;culprit=FS GT:AD:DP:GQ:PL 0/1:43,40:83:99:1412,0,1442
chr6 52137313 rs12207056 C T 464.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.684;ClippingRankSum=-0.306;DB;DP=33;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=47.56;MQ0=0;MQRankSum=-0.162;POSITIVE_TRAIN_SITE;QD=14.08;ReadPosRankSum=1.207;SOR=1.609;VQSLOD=5.72;culprit=FS GT:AD:DP:GQ:PL 0/1:17,16:33:99:493,0,518
chr6 52138441 rs6918669 G A 286.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.355;ClippingRankSum=-0.442;DB;DP=18;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.000;POSITIVE_TRAIN_SITE;QD=15.93;ReadPosRankSum=0.971;SOR=1.781;VQSLOD=6.47;culprit=FS GT:AD:DP:GQ:PL 0/1:9,9:18:99:315,0,267
chr6 52141670 rs3765446 A T 142.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.635;ClippingRankSum=1.000;DB;DP=12;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.134;POSITIVE_TRAIN_SITE;QD=11.90;ReadPosRankSum=0.135;SOR=1.371;VQSLOD=6.12;culprit=FS GT:AD:DP:GQ:PL 0/1:7,5:12:99:171,0,247
chr6 52142092 rs2307325 C T 222.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.092;ClippingRankSum=0.092;DB;DP=24;FS=1.999;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.276;POSITIVE_TRAIN_SITE;QD=9.28;ReadPosRankSum=0.704;SOR=1.214;VQSLOD=2.73;culprit=QD GT:AD:DP:GQ:PL 0/1:16,8:24:99:251,0,540
chr6 52142582 rs13191372 G A 424.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.394;ClippingRankSum=0.496;DB;DP=31;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.50;MQ0=0;MQRankSum=0.695;POSITIVE_TRAIN_SITE;QD=13.70;ReadPosRankSum=1.409;SOR=0.527;VQSLOD=5.12;culprit=FS GT:AD:DP:GQ:PL 0/1:17,14:31:99:453,0,593
chr6 52143987 rs2076510 C T 232.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.780;ClippingRankSum=-0.625;DB;DP=17;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.241;POSITIVE_TRAIN_SITE;QD=13.69;ReadPosRankSum=1.973;SOR=0.593;VQSLOD=5.87;culprit=FS GT:AD:DP:GQ:PL 0/1:9,8:17:99:261,0,314
chr6 52144081 rs2073036 T C 952.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.283;ClippingRankSum=-0.724;DB;DP=63;FS=1.092;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.193;POSITIVE_TRAIN_SITE;QD=15.12;ReadPosRankSum=0.145;SOR=0.485;VQSLOD=2.82;culprit=FS GT:AD:DP:GQ:PL 0/1:29,34:63:99:981,0,911
chr6 52147271 rs7756989 T C 20.80 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=0.720;ClippingRankSum=1.380;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.720;QD=3.47;ReadPosRankSum=0.720;SOR=0.693 GT:AD:DP:GQ:PL 0/1:4,2:6:49:49,0,109
chr6 52147363 rs12202495 A G 191.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.279;ClippingRankSum=0.579;DB;DP=20;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.193;POSITIVE_TRAIN_SITE;QD=9.59;ReadPosRankSum=1.042;SOR=0.392;VQSLOD=5.45;culprit=FS GT:AD:DP:GQ:PL 0/1:12,8:20:99:220,0,424
chr6 52147692 rs2307322 T A 893.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.042;ClippingRankSum=0.160;DB;DP=47;FS=9.107;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.460;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=19.02;ReadPosRankSum=3.166;SOR=2.472;VQSLOD=0.472;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:22,25:47:99:922,0,588
chr6 52148465 rs9474192 T G 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=8.21;culprit=QD GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 52217185 rs9395785 C G 142.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.495;ClippingRankSum=-0.922;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.495;POSITIVE_TRAIN_SITE;QD=20.40;ReadPosRankSum=0.922;SOR=1.609;VQSLOD=5.94;culprit=FS GT:AD:DP:GQ:PL 0/1:2,5:7:66:171,0,66
chr6 52240487 rs6458837 G A 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=7.88;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 52245945 rs71794438 CA C 38.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=19.35;SOR=2.303;VQSLOD=7.53;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 52257835 rs669893 A G 17.61 LowQual AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=17.61;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:44,3,0
chr6 52257856 rs526553 G C 42.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.37;SOR=0.693;VQSLOD=8.49;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:70,6,0
chr6 52267967 rs76408349 A C 39.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.231;ClippingRankSum=1.231;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=55.21;MQ0=0;MQRankSum=1.231;POSITIVE_TRAIN_SITE;QD=7.95;ReadPosRankSum=-0.358;SOR=0.446;VQSLOD=5.70;culprit=QD GT:AD:DP:GQ:PL 0/1:3,2:5:68:68,0,92
chr6 52268008 rs3748066 T G 117.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.495;ClippingRankSum=0.198;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=53.03;MQ0=0;MQRankSum=-0.922;POSITIVE_TRAIN_SITE;QD=16.82;ReadPosRankSum=-0.922;SOR=0.527;VQSLOD=6.33;culprit=FS GT:AD:DP:GQ:PL 0/1:2,5:7:62:146,0,62
chr6 52268086 rs146353145 C T 319.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.458;ClippingRankSum=-0.387;DB;DP=21;FS=3.222;MLEAC=1;MLEAF=0.500;MQ=57.77;MQ0=0;MQRankSum=-0.810;QD=15.23;ReadPosRankSum=0.599;SOR=1.911;VQSLOD=1.55;culprit=FS GT:AD:DP:GQ:PL 0/1:10,11:21:99:348,0,301
chr6 52268890 rs17591381 G A 546.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.060;ClippingRankSum=0.774;DB;DP=49;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.58;MQ0=0;MQRankSum=1.035;POSITIVE_TRAIN_SITE;QD=11.16;ReadPosRankSum=0.794;SOR=0.712;VQSLOD=5.57;culprit=FS GT:AD:DP:GQ:PL 0/1:27,22:49:99:575,0,819
chr6 52269199 rs3799272 T C 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=2.303;VQSLOD=9.07;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 52296461 rs1840169 G C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52319251 rs614570 C T 274.18 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.751;ClippingRankSum=0.751;DB;DP=9;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.751;POSITIVE_TRAIN_SITE;QD=30.46;ReadPosRankSum=0.751;SOR=3.056;VQSLOD=5.38;culprit=FS GT:AD:DP:GQ:PL 0/1:1,8:9:10:302,0,10
chr6 52355206 rs2273120 T C 1095.77 PASS AC=2;AF=1.00;AN=2;DB;DP=30;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.61;SOR=5.353;VQSLOD=6.99;culprit=FS GT:AD:DP:GQ:PL 1/1:0,29:29:87:1124,87,0
chr6 52357260 rs7757370 C A 601.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.84;SOR=5.670;VQSLOD=6.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:48:630,48,0
chr6 52367845 rs3032 C T 381.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.028;ClippingRankSum=0.927;DB;DP=24;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.03;MQ0=0;MQRankSum=0.695;POSITIVE_TRAIN_SITE;QD=15.91;ReadPosRankSum=-0.348;SOR=0.859;VQSLOD=5.92;culprit=FS GT:AD:DP:GQ:PL 0/1:11,13:24:99:410,0,338
chr6 52370939 rs9688915 G A 1148.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.520;ClippingRankSum=1.052;DB;DP=64;FS=1.426;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.175;POSITIVE_TRAIN_SITE;QD=17.95;ReadPosRankSum=0.836;SOR=1.212;VQSLOD=2.70;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:29,35:64:99:1177,0,853
chr6 52380641 rs941968 C T 424.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.390;ClippingRankSum=-1.102;DB;DP=30;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.395;POSITIVE_TRAIN_SITE;QD=14.16;ReadPosRankSum=0.603;SOR=0.576;VQSLOD=5.79;culprit=FS GT:AD:DP:GQ:PL 0/1:16,14:30:99:453,0,559
chr6 52381728 rs6917085 A T 86.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.727;ClippingRankSum=0.727;DB;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.727;POSITIVE_TRAIN_SITE;QD=21.69;ReadPosRankSum=-0.727;SOR=1.609;VQSLOD=6.10;culprit=FS GT:AD:DP:GQ:PL 0/1:1,3:4:32:115,0,32
chr6 52425189 rs7744675 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52433894 rs55959984 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52451301 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52453985 rs9370135 T A 42.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=14.26;ReadPosRankSum=0.736;SOR=0.223;VQSLOD=6.69;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:30:71,0,30
chr6 52469904 rs9463802 A G 49.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.87;SOR=0.693;VQSLOD=9.20;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:77,6,0
chr6 52475696 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52483058 rs11755043 C A 49.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.87;SOR=2.303;VQSLOD=8.10;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:77,6,0
chr6 52538160 rs55704840 A AG 38.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=19.35;SOR=0.693;VQSLOD=8.83;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 52538171 rs7746344 A G 58.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.37;SOR=0.693;VQSLOD=8.58;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:86,6,0
chr6 52538198 rs9349638 T A 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=28.37;SOR=0.693;VQSLOD=7.10;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 52538242 rs9349639 T G 50.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.37;SOR=0.693;VQSLOD=7.79;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:78,6,0
chr6 52538390 rs9349640 T C 45.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=22.87;SOR=0.693;VQSLOD=8.54;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:73,6,0
chr6 52541811 rs13211066 G A 2092.77 PASS AC=2;AF=1.00;AN=2;DB;DP=52;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.36;SOR=7.941;VQSLOD=6.16;culprit=FS GT:AD:DP:GQ:PL 1/1:0,52:52:99:2121,157,0
chr6 52546789 rs2281484 C T 1421.77 PASS AC=2;AF=1.00;AN=2;DB;DP=38;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.25;SOR=7.328;VQSLOD=7.46;culprit=FS GT:AD:DP:GQ:PL 1/1:0,38:38:99:1450,114,0
chr6 52553436 rs9382133 C T 766.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.752;ClippingRankSum=0.060;DB;DP=45;FS=4.452;MLEAC=1;MLEAF=0.500;MQ=58.55;MQ0=0;MQRankSum=0.370;POSITIVE_TRAIN_SITE;QD=17.04;ReadPosRankSum=0.418;SOR=1.118;VQSLOD=2.96;culprit=FS GT:AD:DP:GQ:PL 0/1:18,26:44:99:795,0,532
chr6 52565427 rs4637643 T G 63.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.09;SOR=1.179;VQSLOD=8.30;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:91,9,0
chr6 52568775 rs6909894 G C 181.90 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.69;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.32;SOR=1.981;VQSLOD=6.47;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:210,15,0
chr6 52568848 rs36098646 G GA 25.95 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=0.727;ClippingRankSum=0.727;DB;DP=4;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=62.65;MQ0=0;MQRankSum=0.727;QD=6.49;ReadPosRankSum=0.727;SOR=0.916 GT:AD:DP:GQ:PL 0/1:1,3:4:13:63,0,13
chr6 52615371 rs199546282 T G 302.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-7.160;ClippingRankSum=-0.230;DB;DP=163;FS=296.910;MLEAC=1;MLEAF=0.500;MQ=54.98;MQ0=0;MQRankSum=-0.947;QD=1.86;ReadPosRankSum=-4.824;SOR=8.189;VQSLOD=-1.995e+02;culprit=FS GT:AD:DP:GQ:PL 0/1:103,59:162:99:331,0,2945
chr6 52616633 rs72934249 C T 667.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.954;ClippingRankSum=0.781;DB;DP=47;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.51;MQ0=0;MQRankSum=0.909;POSITIVE_TRAIN_SITE;QD=14.21;ReadPosRankSum=-0.631;SOR=0.509;VQSLOD=5.18;culprit=FS GT:AD:DP:GQ:PL 0/1:26,21:47:99:696,0,789
chr6 52617731 rs2180314 C G 6239.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.736;ClippingRankSum=-0.690;DB;DP=405;FS=1.200;MLEAC=1;MLEAF=0.500;MQ=59.74;MQ0=0;MQRankSum=-0.793;POSITIVE_TRAIN_SITE;QD=15.41;ReadPosRankSum=1.185;SOR=0.583;VQSLOD=1.22;culprit=DP GT:AD:DP:GQ:PL 0/1:207,197:404:99:6268,0,6969
chr6 52622475 rs2608624 G T 277.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.387;ClippingRankSum=-0.529;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.529;POSITIVE_TRAIN_SITE;QD=17.36;ReadPosRankSum=-1.482;SOR=0.941;VQSLOD=4.88;culprit=FS GT:AD:DP:GQ:PL 0/1:7,9:16:99:306,0,255
chr6 52622814 rs2254050 C T 889.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.466;ClippingRankSum=2.068;DB;DP=50;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.456;POSITIVE_TRAIN_SITE;QD=17.80;ReadPosRankSum=0.651;SOR=0.773;VQSLOD=5.34;culprit=FS GT:AD:DP:GQ:PL 0/1:24,26:50:99:918,0,713
chr6 52630153 rs6458868 C T 560.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.030;ClippingRankSum=-0.430;DB;DP=42;FS=1.283;MLEAC=1;MLEAF=0.500;MQ=56.17;MQ0=0;MQRankSum=0.483;POSITIVE_TRAIN_SITE;QD=13.35;ReadPosRankSum=2.308;SOR=1.064;VQSLOD=2.33;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:21,20:41:99:589,0,560
chr6 52630269 rs6458869 C A 534.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.861;ClippingRankSum=-1.139;DB;DP=26;FS=1.757;MLEAC=1;MLEAF=0.500;MQ=49.59;MQ0=0;MQRankSum=-2.083;POSITIVE_TRAIN_SITE;QD=20.57;ReadPosRankSum=-0.583;SOR=0.346;VQSLOD=1.61;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:8,18:26:99:563,0,197
chr6 52631188 rs2749029 A G 696.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.911;ClippingRankSum=0.581;DB;DP=58;FS=2.243;MLEAC=1;MLEAF=0.500;MQ=59.68;MQ0=0;MQRankSum=-0.722;POSITIVE_TRAIN_SITE;QD=12.01;ReadPosRankSum=0.581;SOR=0.416;VQSLOD=2.99;culprit=QD GT:AD:DP:GQ:PL 0/1:33,25:58:99:725,0,1078
chr6 52655827 rs6904269 G A 49.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.87;SOR=2.303;VQSLOD=9.25;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:77,6,0
chr6 52657321 rs4147615 T C 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=9.21;culprit=DP GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 52658962 rs1051775 T C 16388.77 VQSRTrancheSNP99.00to99.90 AC=2;AF=1.00;AN=2;BaseQRankSum=1.724;ClippingRankSum=-0.564;DB;DP=430;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.91;MQ0=0;MQRankSum=0.177;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=26.20;ReadPosRankSum=0.878;SOR=0.736;VQSLOD=-8.417e-01;culprit=DP GT:AD:DP:GQ:PL 1/1:1,429:430:99:16417,1283,0
chr6 52660828 rs2894803 C A 2866.77 PASS AC=2;AF=1.00;AN=2;DB;DP=74;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=56.91;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.82;SOR=8.608;VQSLOD=6.77;culprit=FS GT:AD:DP:GQ:PL 1/1:0,73:73:99:2895,220,0
chr6 52661267 . ATATATATATATATATATATATGTGTG A 235.79 PASS AC=2;AF=1.00;AN=2;DP=21;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=43.56;MQ0=0;QD=11.23;SOR=3.912;VQSLOD=4.84;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:19:273,19,0
chr6 52662263 rs2397106 C T 1326.77 PASS AC=2;AF=1.00;AN=2;DB;DP=39;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=41.50;MQ0=0;QD=34.02;SOR=5.892;VQSLOD=5.23;culprit=FS GT:AD:DP:GQ:PL 1/1:0,38:38:99:1355,114,0
chr6 52662568 rs139503836 G A 365.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.392;ClippingRankSum=-0.198;DB;DP=36;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=56.74;MQ0=0;MQRankSum=-1.778;QD=10.16;ReadPosRankSum=1.120;SOR=0.293;VQSLOD=2.34;culprit=FS GT:AD:DP:GQ:PL 0/1:23,13:36:99:394,0,797
chr6 52663705 rs9349644 C T 48.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.37;SOR=0.693;VQSLOD=7.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:76,6,0
chr6 52663813 rs10948722 A G 801.77 PASS AC=2;AF=1.00;AN=2;DB;DP=20;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.84;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.88;SOR=6.091;VQSLOD=6.69;culprit=FS GT:AD:DP:GQ:PL 1/1:0,20:20:60:830,60,0
chr6 52664133 . T C 1090.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.013;ClippingRankSum=-0.873;DP=57;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.328;QD=19.14;ReadPosRankSum=0.377;SOR=0.285;VQSLOD=3.89;culprit=FS GT:AD:DP:GQ:PL 0/1:26,31:57:99:1119,0,874
chr6 52670630 rs10807454 A C 691.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=44.81;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.23;SOR=3.258;VQSLOD=6.57;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:48:720,48,0
chr6 52670633 rs62412861 A G 725.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=44.81;MQ0=0;QD=24.12;SOR=3.258;VQSLOD=4.49;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:51:754,51,0
chr6 52670639 rs62412870 C T 680.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=44.44;MQ0=0;QD=29.35;SOR=3.258;VQSLOD=4.94;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:48:709,48,0
chr6 52677230 rs5876288 G GA 2040.73 PASS AC=2;AF=1.00;AN=2;BaseQRankSum=-0.420;ClippingRankSum=0.166;DB;DP=129;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=57.66;MQ0=0;MQRankSum=0.381;POSITIVE_TRAIN_SITE;QD=15.82;ReadPosRankSum=-0.674;SOR=1.636;VQSLOD=4.43;culprit=FS GT:AD:DP:GQ:PL 1/1:6,81:87:99:2070,156,0
chr6 52678337 rs6458873 G T 1706.77 PASS AC=2;AF=1.00;AN=2;DB;DP=44;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.48;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.61;SOR=5.330;VQSLOD=6.87;culprit=FS GT:AD:DP:GQ:PL 1/1:0,44:44:99:1735,132,0
chr6 52678463 rs6458874 C T 360.77 PASS AC=2;AF=1.00;AN=2;DB;DP=10;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=57.66;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.20;SOR=4.804;VQSLOD=6.59;culprit=FS GT:AD:DP:GQ:PL 1/1:0,10:10:30:389,30,0
chr6 52678500 rs6458875 C G 82.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=51.77;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.43;SOR=2.833;VQSLOD=8.62;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:110,9,0
chr6 52688905 rs2983232 G T 13.72 LowQual AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=13.72;SOR=1.609 GT:AD:DP:GQ:PL 1/1:0,1:1:3:40,3,0
chr6 52694086 rs4311507 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52695461 rs10948726 G T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=36.50;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52697601 rs55815585 T G 3617.77 PASS AC=2;AF=1.00;AN=2;DB;DP=94;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.68;SOR=2.354;VQSLOD=5.15;culprit=FS GT:AD:DP:GQ:PL 1/1:0,92:92:99:3646,277,0
chr6 52697825 rs4715345 A C 5351.77 PASS AC=2;AF=1.00;AN=2;DB;DP=123;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.29;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.62;SOR=2.226;VQSLOD=5.04;culprit=FS GT:AD:DP:GQ:PL 1/1:0,122:122:99:5380,367,0
chr6 52697834 rs4715346 C A 5365.77 PASS AC=2;AF=1.00;AN=2;DB;DP=120;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.25;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.36;SOR=2.507;VQSLOD=5.69;culprit=FS GT:AD:DP:GQ:PL 1/1:0,120:120:99:5394,370,0
chr6 52697890 rs4715347 C T 2514.77 PASS AC=2;AF=1.00;AN=2;DB;DP=66;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.18;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.91;SOR=5.042;VQSLOD=6.95;culprit=QD GT:AD:DP:GQ:PL 1/1:0,65:65:99:2543,195,0
chr6 52698035 rs4715348 A G 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=2.303;VQSLOD=8.47;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 52698653 rs6458880 C T 131.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.95;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.76;SOR=3.258;VQSLOD=7.46;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:159,12,0
chr6 52698788 rs4712021 T C 3962.77 PASS AC=2;AF=1.00;AN=2;DB;DP=88;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.48;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.39;SOR=8.977;VQSLOD=6.17;culprit=FS GT:AD:DP:GQ:PL 1/1:0,88:88:99:3991,271,0
chr6 52698798 rs4715349 G T 4293.77 PASS AC=2;AF=1.00;AN=2;DB;DP=99;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.06;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.88;SOR=9.210;VQSLOD=6.95;culprit=DP GT:AD:DP:GQ:PL 1/1:0,99:99:99:4322,298,0
chr6 52700920 rs2397117 T C 5074.77 PASS AC=2;AF=1.00;AN=2;DB;DP=131;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.86;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.54;SOR=9.735;VQSLOD=6.59;culprit=FS GT:AD:DP:GQ:PL 1/1:0,129:129:99:5103,388,0
chr6 52701143 rs2397118 C T 12265.77 PASS AC=2;AF=1.00;AN=2;DB;DP=338;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.80;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.40;SOR=1.526;VQSLOD=2.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,337:337:99:12294,1013,0
chr6 52701458 rs2397119 T C 81.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.09;SOR=2.833;VQSLOD=7.99;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:109,9,0
chr6 52701582 rs62412887 T A 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=8.25;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 52701589 rs2397121 T C 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=47.12;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.37;SOR=0.693;VQSLOD=7.15;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 52702324 rs4715350 T C 4926.77 PASS AC=2;AF=1.00;AN=2;DB;DP=136;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.83;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.30;SOR=3.048;VQSLOD=4.71;culprit=FS GT:AD:DP:GQ:PL 1/1:0,135:135:99:4955,406,0
chr6 52702529 rs4715351 T C 1973.77 PASS AC=2;AF=1.00;AN=2;DB;DP=48;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.52;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.80;SOR=7.743;VQSLOD=6.84;culprit=FS GT:AD:DP:GQ:PL 1/1:0,47:47:99:2002,141,0
chr6 52712461 rs9296693 G A 232.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.26;SOR=4.174;VQSLOD=3.81;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:261,21,0
chr6 52712645 rs9296694 C G 4081.77 PASS AC=2;AF=1.00;AN=2;DB;DP=107;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.14;SOR=2.812;VQSLOD=6.01;culprit=FS GT:AD:DP:GQ:PL 1/1:0,107:107:99:4110,322,0
chr6 52713902 rs62412891 C T 1799.77 PASS AC=2;AF=1.00;AN=2;DB;DP=47;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.94;SOR=3.958;VQSLOD=6.18;culprit=FS GT:AD:DP:GQ:PL 1/1:0,47:47:99:1828,141,0
chr6 52724654 rs9349647 C T 94.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.43;SOR=2.833;VQSLOD=8.25;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:122,9,0
chr6 52735179 rs72938158 T A 2626.77 PASS AC=2;AF=1.00;AN=2;BaseQRankSum=1.785;ClippingRankSum=1.186;DB;DP=68;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;MQRankSum=-1.577;NEGATIVE_TRAIN_SITE;POSITIVE_TRAIN_SITE;QD=31.32;ReadPosRankSum=3.323;SOR=5.136;VQSLOD=0.542;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 1/1:4,64:68:99:2655,186,0
chr6 52743455 rs4715360 T C 2478.77 PASS AC=2;AF=1.00;AN=2;DB;DP=62;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.85;SOR=8.287;VQSLOD=5.41;culprit=FS GT:AD:DP:GQ:PL 1/1:0,62:62:99:2507,187,0
chr6 52744741 rs13198332 G A 498.77 PASS AC=2;AF=1.00;AN=2;DB;DP=14;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.93;SOR=0.693;VQSLOD=6.43;culprit=FS GT:AD:DP:GQ:PL 1/1:0,14:14:42:527,42,0
chr6 52746642 rs72940404 G A 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:30:40,0,30
chr6 52761898 rs2295605 T C 585.77 PASS AC=2;AF=1.00;AN=2;DB;DP=17;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.63;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.46;SOR=5.784;VQSLOD=7.27;culprit=FS GT:AD:DP:GQ:PL 1/1:0,17:17:51:614,51,0
chr6 52766192 rs6935603 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52767869 rs542113 T A 53.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.87;SOR=0.693;VQSLOD=8.36;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0
chr6 52768392 . CA C 63.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.806;ClippingRankSum=-0.832;DP=73;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=57.10;MQ0=0;MQRankSum=1.360;QD=0.87;ReadPosRankSum=-1.466;SOR=0.111;VQSLOD=2.98;culprit=FS GT:AD:DP:GQ:PL 0/1:42,11:53:99:101,0,838
chr6 52785560 rs689167 G A 446.77 PASS AC=2;AF=1.00;AN=2;DB;DP=13;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.37;SOR=0.836;VQSLOD=7.29;culprit=FS GT:AD:DP:GQ:PL 1/1:0,13:13:39:475,39,0
chr6 52785580 rs689197 G A 546.77 PASS AC=2;AF=1.00;AN=2;DB;DP=16;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.55;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.17;SOR=0.693;VQSLOD=6.60;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:48:575,48,0
chr6 52785649 rs581594 G A 388.77 PASS AC=2;AF=1.00;AN=2;DB;DP=11;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=57.87;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.47;SOR=4.804;VQSLOD=6.33;culprit=FS GT:AD:DP:GQ:PL 1/1:0,10:10:30:417,30,0
chr6 52795274 rs547362 G T 47.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.87;SOR=0.693;VQSLOD=8.88;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:75,6,0
chr6 52802244 rs371403 A G 109.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.26;SOR=1.609;VQSLOD=7.67;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:137,12,0
chr6 52820382 rs10948733 G A 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=8.62;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 52835606 rs571672 T C 114.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.51;SOR=3.258;VQSLOD=6.85;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:142,12,0
chr6 52839185 rs428957 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52843131 rs367836 G T 2227.77 PASS AC=2;AF=1.00;AN=2;DB;DP=54;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.34;SOR=8.015;VQSLOD=7.12;culprit=FS GT:AD:DP:GQ:PL 1/1:0,54:54:99:2256,163,0
chr6 52843477 rs375887 A G 995.77 PASS AC=2;AF=1.00;AN=2;DB;DP=26;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.28;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.52;SOR=5.058;VQSLOD=6.33;culprit=FS GT:AD:DP:GQ:PL 1/1:0,25:25:75:1024,75,0
chr6 52843524 rs543613 T C 344.78 PASS AC=2;AF=1.00;AN=2;DB;DP=9;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.54;SOR=4.615;VQSLOD=4.87;culprit=FS GT:AD:DP:GQ:PL 1/1:0,9:9:27:373,27,0
chr6 52847150 rs67390777 TA T 38.25 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=66.83;MQ0=0;POSITIVE_TRAIN_SITE;QD=12.75;SOR=2.833;VQSLOD=8.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:75,9,0
chr6 52847273 rs3831189 T TAC 756.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.167;ClippingRankSum=0.026;DB;DP=33;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=61.26;MQ0=0;MQRankSum=-0.078;POSITIVE_TRAIN_SITE;QD=22.93;ReadPosRankSum=0.544;SOR=2.621;VQSLOD=6.58;culprit=FS GT:AD:DP:GQ:PL 0/1:6,24:30:99:794,0,101
chr6 52847551 rs316133 G C 3193.77 PASS AC=2;AF=1.00;AN=2;DB;DP=83;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.72;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.28;SOR=2.833;VQSLOD=6.64;culprit=FS GT:AD:DP:GQ:PL 1/1:0,83:83:99:3222,249,0
chr6 52847682 rs10557482 GGAGA G 232.80 PASS AC=2;AF=1.00;AN=2;DB;DP=9;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=62.36;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=3.912;VQSLOD=6.22;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:18:270,18,0
chr6 52849146 rs316128 G T 959.77 PASS AC=2;AF=1.00;AN=2;DB;DP=28;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.95;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.28;SOR=5.136;VQSLOD=6.09;culprit=FS GT:AD:DP:GQ:PL 1/1:0,26:26:78:988,78,0
chr6 52849481 . C CT 353.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.178;ClippingRankSum=-1.730;DP=59;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=56.53;MQ0=0;MQRankSum=-0.663;POSITIVE_TRAIN_SITE;QD=6.00;ReadPosRankSum=-1.275;SOR=1.609;VQSLOD=5.78;culprit=FS GT:AD:DP:GQ:PL 0/1:14,23:37:99:391,0,172
chr6 52850040 rs669674 A G 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=2.303;VQSLOD=8.43;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 52851936 rs508078 T C 1473.77 PASS AC=2;AF=1.00;AN=2;DB;DP=38;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.45;SOR=5.031;VQSLOD=7.06;culprit=FS GT:AD:DP:GQ:PL 1/1:0,38:38:99:1502,114,0
chr6 52881235 rs11756408 C T 143.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.495;ClippingRankSum=-0.198;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.198;POSITIVE_TRAIN_SITE;QD=20.54;ReadPosRankSum=-0.922;SOR=1.609;VQSLOD=5.81;culprit=FS GT:AD:DP:GQ:PL 0/1:2,5:7:63:172,0,63
chr6 52892683 rs222456 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52929010 rs11401639 A AT 12.93 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=6.47;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52938468 . AT A 1342.73 PASS AC=2;AF=1.00;AN=2;BaseQRankSum=-0.585;ClippingRankSum=-0.022;DP=99;FS=6.337;MLEAC=2;MLEAF=1.00;MQ=60.68;MQ0=0;MQRankSum=-0.412;POSITIVE_TRAIN_SITE;QD=13.56;ReadPosRankSum=-1.299;SOR=3.952;VQSLOD=1.47;culprit=FS GT:AD:DP:GQ:PL 1/1:2,62:64:99:1380,141,0
chr6 52941597 rs34970749 TA T 32.71 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=16.35;SOR=0.693;VQSLOD=7.09;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:69,6,0
chr6 52943841 rs35757290 TA T 559.73 PASS AC=2;AF=1.00;AN=2;DB;DP=18;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.53;MQ0=0;POSITIVE_TRAIN_SITE;QD=31.10;SOR=5.670;VQSLOD=5.92;culprit=FS GT:AD:DP:GQ:PL 1/1:0,16:16:48:597,48,0
chr6 52958479 rs2816350 A G 1666.77 PASS AC=2;AF=1.00;AN=2;DB;DP=45;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.49;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.21;SOR=3.816;VQSLOD=6.04;culprit=FS GT:AD:DP:GQ:PL 1/1:0,44:44:99:1695,132,0
chr6 52962715 rs2744455 C T 1715.77 PASS AC=2;AF=1.00;AN=2;DB;DP=44;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.95;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.20;SOR=6.184;VQSLOD=5.90;culprit=FS GT:AD:DP:GQ:PL 1/1:0,44:44:99:1744,132,0
chr6 52985368 rs6919768 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 52992851 rs377590473 AGAAGG A 35.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.663;ClippingRankSum=1.055;DB;DP=21;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=54.25;MQ0=0;MQRankSum=-2.362;QD=1.70;ReadPosRankSum=0.280;SOR=0.043;VQSLOD=3.98;culprit=FS GT:AD:DP:GQ:PL 0/1:18,3:21:73:73,0,1155
chr6 52998788 rs2816346 G A 128.03 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.95;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.01;SOR=3.258;VQSLOD=7.97;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:156,12,0
chr6 52998834 rs2816345 C T 125.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.247;ClippingRankSum=-0.163;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.55;MQ0=0;MQRankSum=-0.054;POSITIVE_TRAIN_SITE;QD=7.86;ReadPosRankSum=1.464;SOR=0.307;VQSLOD=5.43;culprit=QD GT:AD:DP:GQ:PL 0/1:10,6:16:99:154,0,317
chr6 52998856 rs2518573 T G 225.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.191;ClippingRankSum=0.439;DB;DP=25;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.13;MQ0=0;MQRankSum=-0.322;POSITIVE_TRAIN_SITE;QD=9.03;ReadPosRankSum=-0.966;SOR=0.412;VQSLOD=4.85;culprit=FS GT:AD:DP:GQ:PL 0/1:14,10:24:99:254,0,473
chr6 53010182 rs9367511 A G 116.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.927;ClippingRankSum=-0.533;DB;DP=13;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.212;POSITIVE_TRAIN_SITE;QD=8.98;ReadPosRankSum=1.092;SOR=0.368;VQSLOD=5.93;culprit=FS GT:AD:DP:GQ:PL 0/1:8,5:13:99:145,0,291
chr6 53010609 rs59049517 TA T 57.90 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.731;ClippingRankSum=0.731;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=61.53;MQ0=0;MQRankSum=-0.731;POSITIVE_TRAIN_SITE;QD=8.27;ReadPosRankSum=0.731;SOR=1.981;VQSLOD=6.42;culprit=FS GT:AD:DP:GQ:PL 0/1:1,4:5:14:95,0,14
chr6 53061391 rs78303998 G A 114.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.017;ClippingRankSum=-0.421;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.922;QD=14.35;ReadPosRankSum=0.421;SOR=0.693;VQSLOD=4.60;culprit=FS GT:AD:DP:GQ:PL 0/1:4,4:8:99:143,0,121
chr6 53062469 rs7772870 G A 98.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=32.76;SOR=1.179;VQSLOD=7.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:126,9,0
chr6 53071745 rs77744774 C T 100.77 VQSRTrancheSNP99.00to99.90 AC=1;AF=0.500;AN=2;BaseQRankSum=-0.480;ClippingRankSum=-1.271;DB;DP=10;FS=6.990;MLEAC=1;MLEAF=0.500;MQ=41.67;MQ0=0;MQRankSum=-1.733;QD=10.08;ReadPosRankSum=0.000;SOR=4.407;VQSLOD=-7.559e-01;culprit=FS GT:AD:DP:GQ:PL 0/1:2,8:10:38:129,0,38
chr6 53072388 rs62413047 A C 120.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.447;ClippingRankSum=-0.365;DB;DP=10;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.036;POSITIVE_TRAIN_SITE;QD=12.08;ReadPosRankSum=1.133;SOR=1.329;VQSLOD=4.69;culprit=FS GT:AD:DP:GQ:PL 0/1:4,6:10:99:149,0,125
chr6 53072441 rs11758224 A G 29.77 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=1.067;ClippingRankSum=-1.067;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.572;QD=3.72;ReadPosRankSum=-1.067;SOR=0.693 GT:AD:DP:GQ:PL 0/1:6,2:8:58:58,0,221
chr6 53072501 rs11756086 T C 22.79 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-1.495;ClippingRankSum=-1.495;DB;DP=7;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.198;QD=3.26;ReadPosRankSum=-0.198;SOR=1.802 GT:AD:DP:GQ:PL 0/1:5,2:7:51:51,0,184
chr6 53103062 rs10583094 TAC T 36.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=18.35;SOR=0.693;VQSLOD=8.72;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:73,6,0
chr6 53119938 . G T 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=-0.736;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:33:40,0,33
chr6 53120011 . C T 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53173704 rs209484 C T 29.79 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=-0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=9.93;ReadPosRankSum=-0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:25:58,0,25
chr6 53186203 rs209499 C T 50.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.37;SOR=2.303;VQSLOD=8.79;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:78,6,0
chr6 53210951 rs209523 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53229240 rs1346602 C T 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=2.303;VQSLOD=7.63;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 53302223 rs11967914 C G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53306308 rs1401156 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53325093 rs11969450 G A 33.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=51.77;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=11.26;ReadPosRankSum=0.736;SOR=1.179;VQSLOD=5.93;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:34:62,0,34
chr6 53363487 rs10604357 GGGCT G 931.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.719;ClippingRankSum=0.942;DB;DP=65;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=56.90;MQ0=0;MQRankSum=-0.356;POSITIVE_TRAIN_SITE;QD=14.33;ReadPosRankSum=0.364;SOR=1.141;VQSLOD=6.29;culprit=FS GT:AD:DP:GQ:PL 0/1:37,26:63:99:969,0,1920
chr6 53365019 rs661346 G C 4389.77 PASS AC=2;AF=1.00;AN=2;DB;DP=126;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.49;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.84;SOR=1.262;VQSLOD=6.97;culprit=QD GT:AD:DP:GQ:PL 1/1:0,125:125:99:4418,375,0
chr6 53366008 rs12525473 C T 48.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=24.37;SOR=2.303;VQSLOD=8.18;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:76,6,0
chr6 53366061 rs12525474 C T 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=9.08;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 53370107 rs661603 T C 253.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.678;ClippingRankSum=0.998;DB;DP=16;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.103;POSITIVE_TRAIN_SITE;QD=15.86;ReadPosRankSum=-0.578;SOR=0.693;VQSLOD=6.35;culprit=FS GT:AD:DP:GQ:PL 0/1:8,8:16:99:282,0,260
chr6 53370327 rs17884019 C T 446.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.961;ClippingRankSum=-0.471;DB;DP=32;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.300;POSITIVE_TRAIN_SITE;QD=13.96;ReadPosRankSum=0.848;SOR=1.112;VQSLOD=4.70;culprit=FS GT:AD:DP:GQ:PL 0/1:16,16:32:99:475,0,461
chr6 53372145 rs1555903 T C 760.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.717;ClippingRankSum=-1.830;DB;DP=57;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.171;POSITIVE_TRAIN_SITE;QD=13.35;ReadPosRankSum=0.024;SOR=0.385;VQSLOD=5.78;culprit=FS GT:AD:DP:GQ:PL 0/1:34,23:57:99:789,0,1142
chr6 53373197 rs2235707 G C 375.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.581;ClippingRankSum=-1.193;DB;DP=25;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.250;POSITIVE_TRAIN_SITE;QD=15.03;ReadPosRankSum=0.028;SOR=0.387;VQSLOD=5.68;culprit=FS GT:AD:DP:GQ:PL 0/1:15,10:25:99:404,0,860
chr6 53373198 rs17880319 A G 375.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.380;ClippingRankSum=-0.765;DB;DP=27;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.913;POSITIVE_TRAIN_SITE;QD=13.92;ReadPosRankSum=0.716;SOR=0.404;VQSLOD=4.81;culprit=FS GT:AD:DP:GQ:PL 0/1:16,11:27:99:404,0,860
chr6 53373276 rs17881410 C T 1348.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.532;ClippingRankSum=-1.183;DB;DP=82;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.72;MQ0=0;MQRankSum=0.107;POSITIVE_TRAIN_SITE;QD=16.45;ReadPosRankSum=0.654;SOR=0.742;VQSLOD=4.98;culprit=FS GT:AD:DP:GQ:PL 0/1:40,42:82:99:1377,0,1369
chr6 53373624 rs3830795 G GCTCCAC 706.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.129;ClippingRankSum=-1.149;DB;DP=50;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=50.77;MQ0=0;MQRankSum=-5.319;POSITIVE_TRAIN_SITE;QD=14.13;ReadPosRankSum=-0.966;SOR=0.399;VQSLOD=1.11;culprit=FS GT:AD:DP:GQ:PL 0/1:29,20:49:99:744,0,1894
chr6 53378861 rs11385177 A AT 433.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.124;ClippingRankSum=-1.535;DB;DP=30;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.249;POSITIVE_TRAIN_SITE;QD=14.46;ReadPosRankSum=0.456;SOR=0.693;VQSLOD=6.60;culprit=FS GT:AD:DP:GQ:PL 0/1:15,15:30:99:471,0,469
chr6 53379193 rs17885705 A T 3122.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.101;ClippingRankSum=-0.402;DB;DP=206;FS=0.540;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.173;POSITIVE_TRAIN_SITE;QD=15.16;ReadPosRankSum=1.720;SOR=0.781;VQSLOD=1.97;culprit=FS GT:AD:DP:GQ:PL 0/1:103,103:206:99:3151,0,3088
chr6 53379352 rs17881444 A G 1554.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.383;ClippingRankSum=1.328;DB;DP=104;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.133;POSITIVE_TRAIN_SITE;QD=14.95;ReadPosRankSum=1.368;SOR=0.719;VQSLOD=3.93;culprit=FS GT:AD:DP:GQ:PL 0/1:55,49:104:99:1583,0,1676
chr6 53379405 rs3736729 A C 1019.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.536;ClippingRankSum=0.059;DB;DP=50;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.059;POSITIVE_TRAIN_SITE;QD=20.40;ReadPosRankSum=-1.690;SOR=1.051;VQSLOD=4.96;culprit=FS GT:AD:DP:GQ:PL 0/1:21,29:50:99:1048,0,693
chr6 53379499 rs17883806 G C 182.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.133;ClippingRankSum=-2.383;DB;DP=10;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.866;POSITIVE_TRAIN_SITE;QD=18.28;ReadPosRankSum=-0.741;SOR=1.085;VQSLOD=5.36;culprit=FS GT:AD:DP:GQ:PL 0/1:4,6:10:99:211,0,139
chr6 53385934 rs17883816 T C 291.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.062;ClippingRankSum=0.766;DB;DP=15;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-1.237;POSITIVE_TRAIN_SITE;QD=19.45;ReadPosRankSum=1.591;SOR=1.112;VQSLOD=4.79;culprit=FS GT:AD:DP:GQ:PL 0/1:6,9:15:99:320,0,184
chr6 53394065 rs17883125 C T 54.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.37;SOR=0.693;VQSLOD=7.91;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:82,6,0
chr6 53409451 . C CCCT 53.70 PASS AC=2;AF=1.00;AN=2;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.95;MQ0=0;QD=13.43;SOR=2.303;VQSLOD=6.30;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 53470507 rs9349679 G A 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:33:40,0,33
chr6 53493640 rs6925537 T C 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=1;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.13;SOR=1.609;VQSLOD=6.84;culprit=FS GT:AD:DP:GQ:PL 1/1:0,1:1:6:83,6,0
chr6 53493642 rs6903184 G C 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=0.693;VQSLOD=7.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 53516876 rs6928338 T G 250.78 PASS AC=2;AF=1.00;AN=2;DB;DP=9;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=38.13;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.86;SOR=0.892;VQSLOD=6.06;culprit=FS GT:AD:DP:GQ:PL 1/1:0,9:9:27:279,27,0
chr6 53519062 rs10948758 A G 5150.77 PASS AC=2;AF=1.00;AN=2;DB;DP=125;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.82;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.87;SOR=0.882;VQSLOD=6.17;culprit=FS GT:AD:DP:GQ:PL 1/1:0,125:125:99:5179,376,0
chr6 53519605 rs3799260 C T 7091.77 PASS AC=2;AF=1.00;AN=2;DB;DP=190;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.76;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.12;SOR=0.693;VQSLOD=2.98;culprit=FS GT:AD:DP:GQ:PL 1/1:0,190:190:99:7120,571,0
chr6 53519857 rs12210809 G A 4207.77 PASS AC=2;AF=1.00;AN=2;DB;DP=112;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=58.55;MQ0=0;POSITIVE_TRAIN_SITE;QD=36.51;SOR=1.220;VQSLOD=5.94;culprit=QD GT:AD:DP:GQ:PL 1/1:0,110:110:99:4236,331,0
chr6 53520088 rs2038939 T C 2813.77 PASS AC=2;AF=1.00;AN=2;DB;DP=69;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.28;SOR=3.643;VQSLOD=5.42;culprit=FS GT:AD:DP:GQ:PL 1/1:0,69:69:99:2842,207,0
chr6 53520124 rs2038940 A G 1799.77 PASS AC=2;AF=1.00;AN=2;DB;DP=46;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=59.50;MQ0=0;QD=29.97;SOR=6.273;VQSLOD=4.73;culprit=FS GT:AD:DP:GQ:PL 1/1:0,46:46:99:1828,138,0
chr6 53528784 rs1326553 A G 51.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=25.87;SOR=0.693;VQSLOD=8.43;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:79,6,0
chr6 53529027 rs1326554 A T 3242.77 PASS AC=2;AF=1.00;AN=2;DB;DP=87;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=37.30;SOR=4.929;VQSLOD=5.98;culprit=QD GT:AD:DP:GQ:PL 1/1:0,87:87:99:3271,262,0
chr6 53543213 rs4541744 C T 99.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.09;SOR=1.179;VQSLOD=7.91;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:127,9,0
chr6 53559094 rs10452610 A G 57.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=49.84;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.87;SOR=2.303;VQSLOD=8.57;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:85,6,0
chr6 53586617 rs35610624 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53601883 rs7745277 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53606394 rs4457161 T C 12.07 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=51.77;MQ0=0;MQRankSum=0.736;QD=4.02;ReadPosRankSum=0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:23:40,0,23
chr6 53620789 rs7763482 C T 53.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.87;SOR=2.303;VQSLOD=9.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0
chr6 53626319 . G C 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53654033 rs3001010 C T 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=0.693;VQSLOD=8.63;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 53662935 rs9382237 C T 53.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.87;SOR=0.693;VQSLOD=6.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:81,6,0
chr6 53674284 rs4475321 C T 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=7.61;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 53676354 rs4715425 G A 91.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.43;SOR=1.179;VQSLOD=7.98;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:119,9,0
chr6 53690779 rs3003489 T C 46.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=23.37;SOR=2.303;VQSLOD=8.83;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:74,6,0
chr6 53691835 rs7755924 A G 56.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.37;SOR=2.303;VQSLOD=8.14;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:84,6,0
chr6 53694407 rs6904545 A G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53707098 rs4286781 C T 4179.77 PASS AC=2;AF=1.00;AN=2;DB;DP=110;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.61;SOR=2.876;VQSLOD=6.95;culprit=FS GT:AD:DP:GQ:PL 1/1:0,110:110:99:4208,331,0
chr6 53723062 rs145334901 AT A 13.89 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=6.94;SOR=2.303 GT:AD:DP:GQ:PL 1/1:0,2:2:6:50,6,0
chr6 53726761 rs3935663 C T 47.79 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=15.93;ReadPosRankSum=0.736;SOR=0.223;VQSLOD=6.71;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:22:76,0,22
chr6 53726780 rs3935664 A G 90.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.09;SOR=1.179;VQSLOD=9.22;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:118,9,0
chr6 53749074 rs4265034 G C 79.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.43;SOR=2.833;VQSLOD=8.11;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:107,9,0
chr6 53755300 rs6458972 G A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53762210 rs62397108 C A 270.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.681;ClippingRankSum=-0.033;DB;DP=23;FS=4.904;MLEAC=1;MLEAF=0.500;MQ=59.19;MQ0=0;MQRankSum=0.824;POSITIVE_TRAIN_SITE;QD=11.77;ReadPosRankSum=0.890;SOR=2.165;VQSLOD=2.61;culprit=FS GT:AD:DP:GQ:PL 0/1:12,10:22:99:299,0,376
chr6 53764829 rs71558840 T G 125.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.804;ClippingRankSum=1.304;DB;DP=26;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=39.80;MQ0=0;MQRankSum=2.136;QD=4.84;ReadPosRankSum=1.969;SOR=0.387;VQSLOD=1.71;culprit=QD GT:AD:DP:GQ:PL 0/1:15,10:25:99:154,0,298
chr6 53778661 rs201915048 T G 38.77 VQSRTrancheSNP99.90to100.00 AC=1;AF=0.500;AN=2;BaseQRankSum=-5.938;ClippingRankSum=-0.459;DB;DP=84;FS=136.465;MLEAC=1;MLEAF=0.500;MQ=49.90;MQ0=0;MQRankSum=-5.277;QD=0.46;ReadPosRankSum=-6.784;SOR=6.271;VQSLOD=-4.291e+01;culprit=FS GT:AD:DP:GQ:PL 0/1:61,22:83:67:67,0,1974
chr6 53784268 rs59246960 C CT 332.73 PASS AC=2;AF=1.00;AN=2;DB;DP=17;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=54.32;MQ0=0;QD=19.57;SOR=5.549;VQSLOD=4.44;culprit=FS GT:AD:DP:GQ:PL 1/1:0,15:15:45:370,45,0
chr6 53784662 rs3777661 A G 109.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.922;ClippingRankSum=0.000;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.421;POSITIVE_TRAIN_SITE;QD=13.72;ReadPosRankSum=-0.421;SOR=0.693;VQSLOD=6.47;culprit=FS GT:AD:DP:GQ:PL 0/1:4,4:8:99:138,0,134
chr6 53785276 rs2294789 C A 178.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.383;ClippingRankSum=-0.365;DB;DP=10;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.365;POSITIVE_TRAIN_SITE;QD=17.88;ReadPosRankSum=-2.072;SOR=1.085;VQSLOD=5.18;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:4,6:10:99:207,0,141
chr6 53785759 rs201940946 G GT 45.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.550;ClippingRankSum=-0.550;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=61.34;MQ0=0;MQRankSum=-0.550;QD=5.72;ReadPosRankSum=-0.937;SOR=0.941;VQSLOD=4.79;culprit=FS GT:AD:DP:GQ:PL 0/1:3,4:7:54:83,0,54
chr6 53787267 rs2294791 G C 221.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.074;ClippingRankSum=1.656;DB;DP=13;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.935;POSITIVE_TRAIN_SITE;QD=17.06;ReadPosRankSum=0.101;SOR=0.836;VQSLOD=6.75;culprit=FS GT:AD:DP:GQ:PL 0/1:6,7:13:99:250,0,220
chr6 53805460 rs6907354 A G 55.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.87;SOR=2.303;VQSLOD=8.61;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:83,6,0
chr6 53893735 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53927326 rs4715439 T C 62.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.76;SOR=1.179;VQSLOD=7.26;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:90,9,0
chr6 53953083 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53973251 . G T 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 53982990 rs4521576 A C 57.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.87;SOR=2.303;VQSLOD=8.14;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:85,6,0
chr6 53986503 rs2145754 A T 180.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.749;ClippingRankSum=1.186;DB;DP=11;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.466;POSITIVE_TRAIN_SITE;QD=16.43;ReadPosRankSum=1.932;SOR=0.859;VQSLOD=6.20;culprit=FS GT:AD:DP:GQ:PL 0/1:5,6:11:99:209,0,162
chr6 53989526 rs4712056 G A 2189.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.153;ClippingRankSum=1.695;DB;DP=131;FS=6.808;MLEAC=1;MLEAF=0.500;MQ=59.82;MQ0=0;MQRankSum=-1.076;POSITIVE_TRAIN_SITE;QD=16.72;ReadPosRankSum=1.657;SOR=0.326;VQSLOD=1.81;culprit=FS GT:AD:DP:GQ:PL 0/1:59,70:129:99:2218,0,1820
chr6 54003899 rs11965480 A G 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=0.693;VQSLOD=8.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 54013765 rs2145755 A G 923.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.107;ClippingRankSum=0.838;DB;DP=48;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=2.142;POSITIVE_TRAIN_SITE;QD=19.25;ReadPosRankSum=0.735;SOR=0.866;VQSLOD=4.39;culprit=FS GT:AD:DP:GQ:PL 0/1:22,26:48:99:952,0,728
chr6 54025155 rs10484648 T C 760.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.724;ClippingRankSum=0.655;DB;DP=56;FS=1.455;MLEAC=1;MLEAF=0.500;MQ=59.59;MQ0=0;MQRankSum=-0.099;POSITIVE_TRAIN_SITE;QD=13.59;ReadPosRankSum=0.458;SOR=1.151;VQSLOD=3.37;culprit=FS GT:AD:DP:GQ:PL 0/1:30,23:53:99:789,0,990
chr6 54030072 rs1280860 T C 57.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.87;SOR=2.303;VQSLOD=8.53;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:85,6,0
chr6 54035531 rs2792626 T C 52.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.37;SOR=0.693;VQSLOD=9.15;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:80,6,0
chr6 54046086 rs2792632 A C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54054686 rs6934690 T A 2471.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.306;ClippingRankSum=-2.348;DB;DP=167;FS=1.953;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.357;POSITIVE_TRAIN_SITE;QD=14.80;ReadPosRankSum=1.550;SOR=0.892;VQSLOD=2.86;culprit=DP GT:AD:DP:GQ:PL 0/1:79,88:167:99:2500,0,2110
chr6 54054837 rs9296739 A G 811.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=3.037;ClippingRankSum=-2.468;DB;DP=45;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.876;POSITIVE_TRAIN_SITE;QD=18.04;ReadPosRankSum=-1.149;SOR=0.829;VQSLOD=5.35;culprit=FS GT:AD:DP:GQ:PL 0/1:21,24:45:99:840,0,675
chr6 54058426 . G T 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54067088 rs67016420 AT A 245.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.880;ClippingRankSum=-0.810;DB;DP=24;FS=3.222;MLEAC=1;MLEAF=0.500;MQ=62.65;MQ0=0;MQRankSum=1.303;POSITIVE_TRAIN_SITE;QD=10.24;ReadPosRankSum=0.880;SOR=0.160;VQSLOD=2.56;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:11,10:21:99:283,0,313
chr6 54095411 rs2275770 C G 1855.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.478;ClippingRankSum=-0.434;DB;DP=111;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=58.74;MQ0=0;MQRankSum=1.030;POSITIVE_TRAIN_SITE;QD=16.72;ReadPosRankSum=-1.101;SOR=0.609;VQSLOD=4.20;culprit=FS GT:AD:DP:GQ:PL 0/1:58,53:111:99:1884,0,2350
chr6 54095423 rs816384 T C 2503.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=6.058;ClippingRankSum=-0.087;DB;DP=130;FS=7.052;MLEAC=1;MLEAF=0.500;MQ=58.75;MQ0=0;MQRankSum=-0.073;POSITIVE_TRAIN_SITE;QD=19.26;ReadPosRankSum=0.105;SOR=2.758;VQSLOD=0.745;culprit=FS GT:AD:DP:GQ:PL 0/1:58,72:130:99:2532,0,2153
chr6 54095524 rs2275769 C T 4212.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=4.148;ClippingRankSum=1.384;DB;DP=307;FS=2.750;MLEAC=1;MLEAF=0.500;MQ=59.09;MQ0=0;MQRankSum=-1.330;POSITIVE_TRAIN_SITE;QD=13.72;ReadPosRankSum=0.874;SOR=0.887;VQSLOD=1.41;culprit=DP GT:AD:DP:GQ:PL 0/1:165,138:303:99:4241,0,5117
chr6 54157748 rs6458990 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54157803 rs149997923 G GTT 53.70 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=26.85;SOR=0.693;VQSLOD=7.05;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 54157804 rs13211037 A T 62.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.37;SOR=0.693;VQSLOD=6.75;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 54159866 rs7775058 C T 83.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=27.76;SOR=1.179;VQSLOD=7.56;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:111,9,0
chr6 54159915 rs7740868 G T 64.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=21.43;SOR=2.833;VQSLOD=8.16;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:92,9,0
chr6 54166206 . T C 62.74 PASS AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=31.37;SOR=0.693;VQSLOD=7.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:90,6,0
chr6 54166208 . CA C 43.79 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;QD=14.60;SOR=0.223;VQSLOD=4.47;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:19:81,0,19
chr6 54173085 rs2297981 T A 239.80 PASS AC=2;AF=1.00;AN=2;DB;DP=7;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=34.26;SOR=4.174;VQSLOD=7.06;culprit=FS GT:AD:DP:GQ:PL 1/1:0,7:7:21:268,21,0
chr6 54175705 rs148816365 C CTTTCTT 143 PASS AC=2;AF=1.00;AN=2;DB;DP=4;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=34.37;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.01;SOR=1.609;VQSLOD=8.24;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:180,12,0
chr6 54185689 rs2297983 G T 92.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=53.44;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.76;SOR=2.833;VQSLOD=9.04;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:120,9,0
chr6 54186024 rs2297986 T C 1611.77 PASS AC=2;AF=1.00;AN=2;DB;DP=43;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.67;SOR=5.235;VQSLOD=7.30;culprit=FS GT:AD:DP:GQ:PL 1/1:0,42:42:99:1640,126,0
chr6 54186147 rs1058768 T C 3340.77 PASS AC=2;AF=1.00;AN=2;DB;DP=91;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.94;SOR=0.906;VQSLOD=4.55;culprit=FS GT:AD:DP:GQ:PL 1/1:0,91:91:99:3369,274,0
chr6 54191363 rs9370289 G A 180.90 PASS AC=2;AF=1.00;AN=2;DB;DP=5;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=28.88;SOR=3.611;VQSLOD=5.85;culprit=FS GT:AD:DP:GQ:PL 1/1:0,5:5:15:209,15,0
chr6 54191970 rs1848440 T A 4352.77 PASS AC=2;AF=1.00;AN=2;DB;DP=121;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=26.31;SOR=3.556;VQSLOD=5.90;culprit=FS GT:AD:DP:GQ:PL 1/1:0,121:121:99:4381,364,0
chr6 54208353 rs1417387 T C 185.84 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=30.97;SOR=3.912;VQSLOD=6.78;culprit=FS GT:AD:DP:GQ:PL 1/1:0,6:6:18:214,18,0
chr6 54212964 rs1876606 C T 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54349833 rs2294725 G A 95.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.017;ClippingRankSum=0.000;DB;DP=8;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=43.31;MQ0=0;MQRankSum=0.421;POSITIVE_TRAIN_SITE;QD=11.97;ReadPosRankSum=-1.368;SOR=0.693;VQSLOD=5.69;culprit=FS GT:AD:DP:GQ:PL 0/1:4,4:8:99:124,0,121
chr6 54350048 rs807991 G A 997.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.754;ClippingRankSum=0.019;DB;DP=73;FS=12.208;MLEAC=1;MLEAF=0.500;MQ=57.55;MQ0=0;MQRankSum=1.161;POSITIVE_TRAIN_SITE;QD=13.67;ReadPosRankSum=0.551;SOR=0.108;VQSLOD=1.60;culprit=FS GT:AD:DP:GQ:PL 0/1:28,38:66:99:1026,0,963
chr6 54350422 rs565623 G A 1056.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.722;ClippingRankSum=-0.634;DB;DP=67;FS=3.327;MLEAC=1;MLEAF=0.500;MQ=59.66;MQ0=0;MQRankSum=0.433;POSITIVE_TRAIN_SITE;QD=15.77;ReadPosRankSum=-1.010;SOR=1.142;VQSLOD=2.92;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:32,35:67:99:1085,0,982
chr6 54356832 rs3900305 T A 31.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.231;ClippingRankSum=-1.231;DB;DP=5;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.358;POSITIVE_TRAIN_SITE;QD=6.35;ReadPosRankSum=0.358;SOR=0.368;VQSLOD=5.26;culprit=QD GT:AD:DP:GQ:PL 0/1:3,2:5:60:60,0,75
chr6 54438922 rs10447409 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54467267 rs1951694 A G 44.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.736;POSITIVE_TRAIN_SITE;QD=14.92;ReadPosRankSum=-0.736;SOR=1.179;VQSLOD=6.23;culprit=FS GT:AD:DP:GQ:PL 0/1:1,2:3:32:73,0,32
chr6 54477874 rs5876389 T TA 16.80 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=8.40;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:53,6,0
chr6 54485844 rs7766941 T C 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54489986 rs10948830 G A 2797.77 VQSRTrancheSNP99.00to99.90 AC=1;AF=0.500;AN=2;BaseQRankSum=-2.226;ClippingRankSum=-0.973;DB;DP=129;FS=4.335;MLEAC=1;MLEAF=0.500;MQ=59.28;MQ0=0;MQRankSum=1.300;NEGATIVE_TRAIN_SITE;QD=21.69;ReadPosRankSum=1.119;SOR=0.983;VQSLOD=-1.343e+00;culprit=DP GT:AD:DP:GQ:PL 0/1:54,73:127:99:2826,0,2602
chr6 54489990 rs10948831 A G 2774.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=1.682;ClippingRankSum=-0.704;DB;DP=125;FS=2.332;MLEAC=1;MLEAF=0.500;MQ=59.26;MQ0=0;MQRankSum=0.479;POSITIVE_TRAIN_SITE;QD=22.20;ReadPosRankSum=0.468;SOR=0.927;VQSLOD=0.604;culprit=DP GT:AD:DP:GQ:PL 0/1:52,71:123:99:2803,0,2545
chr6 54490041 rs9349726 T C 2720.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=5.830;ClippingRankSum=-0.591;DB;DP=155;FS=2.034;MLEAC=1;MLEAF=0.500;MQ=58.04;MQ0=0;MQRankSum=2.054;POSITIVE_TRAIN_SITE;QD=17.55;ReadPosRankSum=0.525;SOR=0.513;VQSLOD=1.47;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:71,82:153:99:2749,0,2148
chr6 54490338 rs10807475 T A 832.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.069;ClippingRankSum=-0.537;DB;DP=81;FS=11.744;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=1.204;POSITIVE_TRAIN_SITE;QD=10.28;ReadPosRankSum=0.105;SOR=0.051;VQSLOD=0.328;culprit=FS GT:AD:DP:GQ:PL 0/1:36,38:74:99:870,0,1117
chr6 54500405 . A G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54557514 rs1395632 G A 12.05 LowQual AC=1;AF=0.500;AN=2;BaseQRankSum=-0.736;ClippingRankSum=0.736;DB;DP=3;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=-0.736;QD=4.02;ReadPosRankSum=-0.736;SOR=0.223 GT:AD:DP:GQ:PL 0/1:1,2:3:35:40,0,35
chr6 54571089 rs6907631 T G 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54635275 rs2397171 G C 38.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=0.720;ClippingRankSum=-0.720;DB;DP=6;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.720;POSITIVE_TRAIN_SITE;QD=6.46;ReadPosRankSum=0.720;SOR=0.307;VQSLOD=5.95;culprit=QD GT:AD:DP:GQ:PL 0/1:4,2:6:67:67,0,148
chr6 54635398 rs5876400 T TG 256.73 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-1.600;ClippingRankSum=-2.000;DB;DP=14;FS=2.363;MLEAC=1;MLEAF=0.500;MQ=51.87;MQ0=0;MQRankSum=-1.733;POSITIVE_TRAIN_SITE;QD=18.34;ReadPosRankSum=-1.467;SOR=1.288;VQSLOD=1.73;culprit=MQRankSum GT:AD:DP:GQ:PL 0/1:5,9:14:99:294,0,145
chr6 54635417 rs4516942 G A 237.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-2.532;ClippingRankSum=-0.794;DB;DP=20;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=55.69;MQ0=0;MQRankSum=-1.172;POSITIVE_TRAIN_SITE;QD=11.89;ReadPosRankSum=-0.189;SOR=0.693;VQSLOD=4.98;culprit=FS GT:AD:DP:GQ:PL 0/1:10,10:20:99:266,0,354
chr6 54635605 rs73742825 C G 103.03 PASS AC=2;AF=1.00;AN=2;DB;DP=6;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=36.07;MQ0=0;QD=17.17;SOR=1.609;VQSLOD=3.97;culprit=FS GT:AD:DP:GQ:PL 1/1:0,4:4:12:131,12,0
chr6 54661634 rs12216186 A G 59.74 PASS AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=29.87;SOR=2.303;VQSLOD=8.16;culprit=FS GT:AD:DP:GQ:PL 1/1:0,2:2:6:87,6,0
chr6 54672835 rs10807480 T A 21.77 LowQual AC=2;AF=1.00;AN=2;DB;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54682692 . C G 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54691959 . C A 21.77 LowQual AC=2;AF=1.00;AN=2;DP=2;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;QD=10.88;SOR=0.693 GT:AD:DP:GQ:PL 1/1:0,2:2:6:49,6,0
chr6 54692294 rs72957572 A G 62.28 PASS AC=2;AF=1.00;AN=2;DB;DP=3;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=20.76;SOR=1.179;VQSLOD=8.44;culprit=FS GT:AD:DP:GQ:PL 1/1:0,3:3:9:90,9,0
chr6 54734941 rs7765721 C A 557.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-4.038;ClippingRankSum=-1.807;DB;DP=46;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=59.50;MQ0=0;MQRankSum=0.312;POSITIVE_TRAIN_SITE;QD=12.13;ReadPosRankSum=0.089;SOR=0.412;VQSLOD=4.55;culprit=FS GT:AD:DP:GQ:PL 0/1:27,19:46:99:586,0,962
chr6 54735122 rs1472679 A G 2623.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=2.370;ClippingRankSum=-0.594;DB;DP=179;FS=1.203;MLEAC=1;MLEAF=0.500;MQ=59.51;MQ0=0;MQRankSum=-0.157;POSITIVE_TRAIN_SITE;QD=14.66;ReadPosRankSum=1.205;SOR=0.798;VQSLOD=2.83;culprit=DP GT:AD:DP:GQ:PL 0/1:91,86:177:99:2652,0,2889
chr6 54735594 rs995851 G A 418.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-3.928;ClippingRankSum=0.395;DB;DP=30;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=60.00;MQ0=0;MQRankSum=0.187;POSITIVE_TRAIN_SITE;QD=13.96;ReadPosRankSum=-0.686;SOR=0.576;VQSLOD=5.25;culprit=ReadPosRankSum GT:AD:DP:GQ:PL 0/1:16,14:30:99:447,0,581
chr6 54735606 rs995852 G A 893.77 PASS AC=2;AF=1.00;AN=2;DB;DP=23;FS=0.000;MLEAC=2;MLEAF=1.00;MQ=60.00;MQ0=0;POSITIVE_TRAIN_SITE;QD=33.18;SOR=6.358;VQSLOD=6.01;culprit=FS GT:AD:DP:GQ:PL 1/1:0,23:23:69:922,69,0
chr6 54792553 . G A 1230.77 PASS AC=1;AF=0.500;AN=2;BaseQRankSum=-5.237;ClippingRankSum=1.275;DP=82;FS=0.000;MLEAC=1;MLEAF=0.500;MQ=36.68;MQ0=0;MQRankSum=-1.187;QD=15.01;ReadPosRankSum=-0.624;SOR=1.402;VQSLOD=3.32;culprit=FS GT:AD:DP:GQ:PL 0/1:27,48:75:99:1259,0,685