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synthetic_ALDOB.maf001.AR.vcf
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##fileformat=VCFv4.2
##fileDate=20160824
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##contig=<ID=chrUn_KI270548v1,length=1599,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270583v1,length=1400,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270587v1,length=2969,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270580v1,length=1553,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270581v1,length=7046,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270579v1,length=31033,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270589v1,length=44474,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270590v1,length=4685,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270584v1,length=4513,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270582v1,length=6504,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270588v1,length=6158,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270593v1,length=3041,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270591v1,length=5796,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270330v1,length=1652,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270329v1,length=1040,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270334v1,length=1368,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270333v1,length=2699,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270335v1,length=1048,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270338v1,length=1428,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270340v1,length=1428,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270336v1,length=1026,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270337v1,length=1121,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270363v1,length=1803,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270364v1,length=2855,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270362v1,length=3530,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270366v1,length=8320,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270378v1,length=1048,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270379v1,length=1045,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270389v1,length=1298,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270390v1,length=2387,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270387v1,length=1537,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270395v1,length=1143,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270396v1,length=1880,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270388v1,length=1216,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270394v1,length=970,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270386v1,length=1788,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270391v1,length=1484,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270383v1,length=1750,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270393v1,length=1308,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270384v1,length=1658,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270392v1,length=971,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270381v1,length=1930,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270385v1,length=990,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270382v1,length=4215,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270376v1,length=1136,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270374v1,length=2656,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270372v1,length=1650,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270373v1,length=1451,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270375v1,length=2378,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270371v1,length=2805,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270448v1,length=7992,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270521v1,length=7642,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000195v1,length=182896,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000219v1,length=179198,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000220v1,length=161802,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000224v1,length=179693,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270741v1,length=157432,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000226v1,length=15008,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000213v1,length=164239,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270743v1,length=210658,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270744v1,length=168472,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270745v1,length=41891,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270746v1,length=66486,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270747v1,length=198735,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270748v1,length=93321,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270749v1,length=158759,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270750v1,length=148850,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270751v1,length=150742,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270752v1,length=27745,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270753v1,length=62944,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270754v1,length=40191,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270755v1,length=36723,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270756v1,length=79590,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270757v1,length=71251,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000214v1,length=137718,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_KI270742v1,length=186739,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000216v2,length=176608,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrUn_GL000218v1,length=161147,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##contig=<ID=chrEBV,length=171823,assembly=human_GRCh38_no_alt_analysis_set.fasta>
##FILTER=<ID=GQlessthan70,Description="Sum of GQ for datasets with this genotype less than 70">
##FILTER=<ID=allfilteredanddisagree,Description="All callsets have this call filtered or outside the callable regions and they have discordant genotypes or variant calls">
##FILTER=<ID=allfilteredbutagree,Description="All callsets have this call filtered or outside the callable regions but they have the same genotype">
##FILTER=<ID=discordantunfiltered,Description="Callsets with unfiltered calls have discordant genotypes or variant calls">
##FILTER=<ID=discordanthet,Description="Filtered calls where a passing call is het and a high GQ but filtered call is hom var, since often the het is wrong">
##FILTER=<ID=questionableindel,Description="Filtered calls where some callsets have a filtered indel larger than 10bp and another dataset has an implied homozygous reference call">
##FILTER=<ID=cgonly,Description="Filtered calls where only Complete Genomics had this call and it was completely missing from any other callset">
##FILTER=<ID=alleleimbalance,Description="Filtered calls where the net allele balance for unfiltered datasets is <0.2 or >0.8">
##FILTER=<ID=overlappingcall,Description="Filtered sites that are within 50bp of another passing call but none of the callsets that support the 2 calls match">
##INFO=<ID=DPSum,Number=1,Type=Integer,Description="Total read depth summed across all datasets, excluding MQ0 reads">
##INFO=<ID=platforms,Number=1,Type=Integer,Description="Number of different platforms for which at least one callset called this genotype, whether filtered or not">
##INFO=<ID=platformnames,Number=.,Type=String,Description="Names of platforms for which at least one callset called this genotype, whether filtered or not">
##INFO=<ID=platformbias,Number=.,Type=String,Description="Names of platforms that have reads containing a variant at this location, but the high-confidence call is homozygous reference, indicating that there is a potential bias.">
##INFO=<ID=datasets,Number=1,Type=Integer,Description="Number of different datasets for which at least one callset called this genotype, whether filtered or not">
##INFO=<ID=datasetnames,Number=.,Type=String,Description="Names of datasets for which at least one callset called this genotype, whether filtered or not">
##INFO=<ID=datasetsmissingcall,Number=.,Type=String,Description="Names of datasets that are missing a call or have an incorrect call at this location, and the high-confidence call is a variant">
##INFO=<ID=callsets,Number=1,Type=Integer,Description="Number of different callsets that called this genotype, whether filtered or not">
##INFO=<ID=callsetnames,Number=.,Type=String,Description="Names of callsets that called this genotype, whether filtered or not">
##INFO=<ID=varType,Number=1,Type=String,Description="Type of variant">
##INFO=<ID=filt,Number=.,Type=String,Description="List of callsets that had this call filtered.">
##INFO=<ID=callable,Number=.,Type=String,Description="List of callsets that had this call in a region with low coverage of high MQ reads.">
##INFO=<ID=difficultregion,Number=.,Type=String,Description="List of difficult region bed files containing this call.">
##INFO=<ID=arbitrated,Number=1,Type=String,Description="TRUE if callsets had discordant calls so that arbitration was needed.">
##INFO=<ID=callsetwiththisuniqgenopassing,Number=.,Type=String,Description="Callset that uniquely calls the PASSing genotype in GT when 2+ PASSing callsets support a different genotype.">
##INFO=<ID=callsetwithotheruniqgenopassing,Number=.,Type=String,Description="Callset that uniquely calls a PASSing genotype different from GT when 2+ PASSing callsets support the genotype in GT.">
##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Total read depth summed across all datasets, excluding MQ0 reads">
##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Net Genotype quality across all datasets, calculated from GQ scores of callsets supporting the consensus GT, using only one callset from each dataset">
##FORMAT=<ID=ADALL,Number=R,Type=Integer,Description="Net allele depths across all datasets">
##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Net allele depths across all unfiltered datasets with called genotype">
##FORMAT=<ID=GT,Number=1,Type=String,Description="Consensus Genotype across all datasets with called genotype">
##FORMAT=<ID=PS,Number=1,Type=Integer,Description="Phase set in which this variant falls">
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT HG002
1 9757836 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1194:0,345:73,632:578
1 75111955 . A C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:177:0,44:0,47:232
1 83509957 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1122:0,315:69,619:498
1 95296714 . C G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:272:0,79:0,52:277
1 97320770 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,66:0,52:126
1 97321323 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:0,60:0,50:99
1 97508848 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1043:0,279:86,583:499
1 108225081 . G A 50 PASS platforms=4;platformnames=PacBio,10X,CG,Illumina;datasets=6;datasetnames=CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:305:85,199:0,52:389
1 108264870 . C T 50 PASS platforms=3;platformnames=10X,CG,Illumina;datasets=4;datasetnames=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:65,111:0,36:308
1 108267998 . T C 50 PASS platforms=2;platformnames=10X,Illumina;datasets=3;datasetnames=10XChromiumLR,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=10XLRGATK,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:319:0,147:0,25:200
1 108376045 . T G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairSentieon_filt;arbitrated=TRUE;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:134:0,69:0,69:59
1 108377430 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:200:19,108:0,73:195
1 108382029 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:191:0,100:0,74:140
1 120285520 . A T 50 PASS platforms=1;platformnames=10X;datasets=1;datasetnames=10XChromiumLR;callsets=1;callsetnames=10XLRGATK;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:53:10,43:10,43:99
1 120608902 . A G 50 PASS platforms=1;platformnames=10X;datasets=1;datasetnames=10XChromiumLR;callsets=1;callsetnames=10XLRGATK;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:58:11,47:11,47:99
1 161512600 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:214:0,56:0,53:198
1 161534671 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:307:0,93:0,59:209
1 161561240 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:160:1,84:1,59:141
1 161561241 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:160:0,85:0,60:135
1 161561243 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:162:1,84:1,58:168
1 161589532 . C T 50 PASS platforms=2;platformnames=PacBio,CG;datasets=2;datasetnames=CCS15kb_20kb,CGnormal;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CGnormal_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:164:94,132:0,38:149
1 161589536 . C T 50 PASS platforms=2;platformnames=PacBio,CG;datasets=2;datasetnames=CCS15kb_20kb,CGnormal;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CGnormal_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:155:85,123:0,38:155
1 161590922 . T C 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CGnormal_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:205:109,158:0,43:171
1 161625054 . A T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:83:0,46:0,46:54
1 161625055 . TAAAGA T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:83:0,44:0,44:48
1 161654042 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:0,6:0,43:57
1 161654084 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqPE300x;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:96:0,3:0,42:49
1 161654428 . C CCTCTGCT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:82:1,44:0,36:38
1 161654446 . C A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:82:0,46:0,36:28
1 161654450 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:82:0,46:0,36:30
1 176257518 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:277:0,61:0,49:281
1 176257542 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:309:1,105:0,49:291
1 176260735 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:127:0,72:0,47:130
1 176310310 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:228:0,58:0,61:218
1 176310318 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:224:0,54:0,60:201
1 208520293 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1153:0,339:55,613:513
1 208546617 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1140:0,297:86,559:592
1 208574562 . G A 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeq250x250Sentieon,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1041:2,338:0,489:338
1 208602787 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_CCS15kb_20kbDV_filt,CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1103:2,274:100,605:575
1 208632007 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CGnormal_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1061:0,358:1,487:531
1 208789210 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1037:0,274:64,581:495
1 208843653 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:861:0,247:85,394:625
1 208885701 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1069:0,287:94,590:485
1 208898521 . G T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1255:1,409:75,670:596
1 209915535 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:162:0,76:0,49:137
1 211644174 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1107:0,324:44,592:496
1 212518622 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1037:0,341:105,520:589
1 212540684 . C A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1131:0,392:87,537:689
1 213028428 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1383:0,448:64,688:553
1 213050300 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1303:0,402:124,671:506
1 213112518 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,Solid;datasets=6;datasetnames=HiSeqPE300x,HiSeq250x250,CCS15kb_20kb,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=10;callsetnames=HiSeqPE300xSentieon,HiSeq250x250Sentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=CGnormal,IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_HiSeq250x250Sentieon_callable;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1350:0,540:0,563:490
1 213168989 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1268:1,454:105,634:579
1 213204160 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1188:3,403:51,590:462
1 213445241 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1232:1,423:80,600:590
1 213464320 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1352:1,451:84,705:481
1 213554521 . C G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1111:0,341:111,623:563
1 213875873 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1141:0,348:108,614:594
1 213920267 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1288:2,428:84,635:554
1 214437409 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1299:0,424:69,646:496
1 214514734 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1199:1,420:135,594:602
1 214562326 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1127:2,387:86,563:600
1 214623975 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1279:0,438:82,644:474
1 214697855 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1075:0,341:65,541:483
1 214741616 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1128:0,374:82,574:492
1 214759368 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1041:2,363:65,520:487
1 214783538 . G A 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1105:0,399:0,516:397
1 214794240 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CCS15kb_20kbDV_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1051:2,379:76,507:552
1 214796253 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1013:3,367:58,483:470
1 214804452 . T G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1286:1,486:54,607:593
1 214823194 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeq250x250freebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:716:1,229:73,277:549
1 214880719 . A T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CGnormal_filt,CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1227:0,440:0,550:499
1 217093793 . A C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,HiSeq250x250,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,HiSeq250x250Sentieon,CCS15kb_20kbDV,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CCS15kb_20kb,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_CGnormal_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1005:26,449:6,407:433
2 10565345 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1161:0,311:117,634:598
2 10610380 . T G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1338:1,422:74,709:605
2 45063431 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:151:0,74:0,56:114
2 45064642 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:148:0,71:0,51:124
2 52673326 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1129:0,320:92,629:493
2 52675311 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1211:2,392:76,637:585
2 59522898 . T C 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,HiSeq250x250,CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,HiSeq250x250Sentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_CGnormal_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1088:13,416:2,457:306
2 59538645 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1164:0,328:114,657:507
2 59661876 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:964:1,317:72,484:486
2 59669386 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1182:0,377:95,621:484
2 59719846 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:978:7,353:77,460:499
2 59800438 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1188:0,389:80,597:487
2 59918090 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1141:1,395:64,534:706
2 59944658 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1019:0,262:86,573:495
2 60011132 . T A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1374:1,399:89,723:695
2 60012953 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1433:0,458:46,764:579
2 65568213 . T TC 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:58:0,56:0,56:63
2 66628403 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:244:0,129:0,65:155
2 66628405 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:244:0,129:0,65:156
2 66628406 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:243:0,128:0,64:150
2 76799331 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,67:0,61:80
2 76799336 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:130:0,8:0,61:86
2 102569397 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:126:0,73:0,59:105
2 102569664 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:135:0,76:0,61:104
2 102569843 . G T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:170:2,70:3,85:141
2 102569898 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:181:0,79:1,87:147
2 102569987 . G T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:185:0,82:0,106:212
2 102570904 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:163:0,76:1,81:127
2 102571408 . G T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:174:0,79:0,81:154
2 108236183 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1353:0,398:63,731:489
2 111338796 . G A 50 PASS platforms=2;platformnames=10X,PacBio;datasets=2;datasetnames=10XChromiumLR,CCS15kb_20kb;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_CCS15kb_20kbGATK4_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:0,55:5,32:114
2 111751380 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:226:0,20:0,133:212
2 112378491 . G C 50 PASS platforms=2;platformnames=10X,PacBio;datasets=2;datasetnames=10XChromiumLR,CCS15kb_20kb;callsets=2;callsetnames=10XLRGATK,CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:85:0,10:3,72:112
2 112378536 . C A 50 PASS platforms=3;platformnames=10X,Illumina,PacBio;datasets=3;datasetnames=10XChromiumLR,HiSeqPE300x,CCS15kb_20kb;callsets=4;callsetnames=10XLRGATK,HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeqPE300xfreebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,34:0,64:184
2 124141819 . T G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:307:1,101:0,72:254
2 124141822 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:304:1,98:0,72:255
2 131768463 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250freebayes;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,8:0,42:112
2 157567403 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:154:0,78:0,65:98
2 157568474 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:217:2,59:0,67:244
2 157569774 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:143:0,70:0,62:121
2 157570149 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:166:0,76:6,86:199
2 157570429 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:150:0,71:0,63:112
2 157570599 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:143:1,69:1,61:84
2 157570625 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:135:1,73:0,61:87
2 157570743 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:136:0,70:0,61:85
2 157571350 . A C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:210:3,24:1,94:149
2 165734658 . C G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:172:0,81:0,94:178
2 167740360 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1197:0,387:44,613:697
2 173452523 . T A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1072:1,337:91,591:499
2 177973818 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:0,52:0,48:99
2 177973851 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:99:1,50:1,48:69
2 177973917 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:0,61:0,49:99
2 177974281 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:288:0,84:0,52:294
2 177975956 . T TA 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:260:0,65:0,57:105
2 177975983 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:263:0,68:0,58:262
2 177978268 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:188:4,78:0,56:201
2 198848816 . C CAT 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=3;callsetnames=CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:175:5,56:5,56:316
2 198848834 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=3;callsetnames=CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:135:0,63:0,63:362
2 198848844 . C CAT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:63:4,53:4,53:46
2 198848849 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:64:0,63:0,63:66
2 198848862 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=2;callsetnames=CCS15kb_20kbDV,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:87:0,64:0,64:202
2 198848892 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=2;callsetnames=CCS15kb_20kbDV,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:86:0,64:0,64:210
2 198848922 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=2;callsetnames=CCS15kb_20kbDV,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:84:0,66:0,66:185
2 206911843 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:327:3,132:0,58:175
2 208637436 . C A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:47:1,46:1,46:49
2 232408416 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,58:0,55:76
2 232408425 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,54:0,54:66
2 238499104 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:789:2,226:77,404:467
2 238695683 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1127:0,315:86,594:585
2 238696936 . G T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1054:0,333:111,569:566
3 1019459 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1046:0,334:51,550:598
3 1811729 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:281:0,86:0,52:202
3 2007599 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:219:0,50:0,62:250
3 7524654 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:200:0,47:0,50:186
3 7524674 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:161:0,29:0,52:156
3 7524724 . A T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:187:0,38:0,52:168
3 26398892 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:123:0,66:0,59:81
3 26399125 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:127:0,71:0,59:95
3 26401196 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:0,65:0,62:70
3 26401733 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:170:1,79:2,90:177
3 26403078 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:1,70:1,59:94
3 29419759 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1172:1,399:71,632:584
3 54439333 . T TG 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_CGnormal_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:72:0,66:0,66:60
3 55140227 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,54:0,44:137
3 65697809 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:131:0,64:0,55:86
3 65697815 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:124:0,69:0,55:107
3 65697980 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:111:0,60:0,52:76
3 65697981 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:111:0,60:0,52:82
3 65698013 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,70:0,52:117
3 74430366 . T G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1167:2,330:92,611:708
3 74585437 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1204:1,382:78,642:598
3 74617801 . TA T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1054:0,442:47,436:538
3 74617806 . AT A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1020:0,311:39,446:536
3 74644947 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1032:0,279:81,553:458
3 74669058 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1141:1,339:68,591:695
3 74670028 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1064:1,280:60,582:482
3 74839424 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1230:0,399:63,659:533
3 74879610 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1092:0,388:58,548:470
3 74917921 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1156:1,444:44,565:491
3 74943802 . A C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1119:1,395:76,558:551
3 74954083 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1185:0,423:51,591:480
3 74966113 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1060:0,312:84,533:494
3 75000032 . T TACA 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;arbitrated=TRUE;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:281:0,121:0,65:360
3 75000034 . GGA G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;arbitrated=TRUE;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:289:0,125:0,65:365
3 75007773 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:890:2,307:58,428:503
3 75020851 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1154:1,415:91,579:564
3 75021872 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1272:1,481:39,620:462
3 75054739 . G T 50 PASS platforms=5;platformnames=PacBio,10X,CG,Illumina,Solid;datasets=7;datasetnames=CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1059:2,298:83,195:674
3 75060597 . A C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1133:0,328:91,624:501
3 75125031 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:908:0,382:0,98:404
3 75125518 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:797:0,327:1,83:406
3 75128957 . T A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1101:0,318:78,613:481
3 75159090 . CTA C 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,HiSeqPE300xSentieon,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;difficultregion=GRCh38_AllTandemRepeats_51to200bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1098:58,547:1,72:450
3 75163664 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1148:0,356:61,628:471
3 75174325 . CAAAAAA C 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:485:3,202:0,145:327
3 75174468 . C G 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:837:1,304:1,310:441
3 75178545 . A T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:962:0,255:93,540:495
3 75179197 . G C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1114:1,374:89,552:587
3 75236878 . C A 50 PASS platforms=4;platformnames=PacBio,10X,Illumina,CG;datasets=6;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:1011:88,479:1,104:489
3 75272267 . G A 50 PASS platforms=4;platformnames=PacBio,10X,Illumina,CG;datasets=6;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:1191:81,550:0,118:496
3 75280957 . A G 50 PASS platforms=5;platformnames=PacBio,Illumina,10X,CG,Solid;datasets=7;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:925:47,474:0,45:545
3 78490752 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:0,59:0,54:67
3 78490770 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:97:0,52:0,52:67
3 78490780 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:99:0,54:0,54:61
3 78490846 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:97:1,54:1,54:60
3 78490850 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:97:0,55:0,55:61
3 78490852 . A C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:97:2,53:2,53:58
3 78490864 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:96:0,54:0,54:52
3 78490930 . A G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:102:0,55:0,55:60
3 78490950 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:102:0,55:0,55:55
3 78490953 . C A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:102:0,55:0,55:50
3 78490968 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:102:0,55:0,55:60
3 78490975 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqPE300x;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:123:0,15:0,55:106
3 110118682 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:1,65:0,47:92
3 110119581 . A C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:142:2,81:0,43:118
3 111719031 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1359:1,419:74,658:585
3 111751453 . C T 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,HiSeqPE300xSentieon,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1126:75,565:0,64:512
3 118915730 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:230:1,56:0,56:188
3 118918245 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:299:0,71:0,79:326
3 120373838 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:216:0,46:1,59:198
3 120373842 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:213:0,43:0,60:193
3 137635025 . G T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:237:0,67:0,60:226
3 137635277 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:175:0,31:0,60:195
3 137635338 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:226:1,46:0,78:233
3 137636833 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:180:3,49:0,58:231
3 140679054 . A ACCC 50 PASS platforms=2;platformnames=Illumina,PacBio;datasets=4;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:775:0,275:12,237:257
3 163240127 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,24:0,73:196
3 163240134 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,27:0,72:208
3 163241056 . A T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:228:0,46:0,54:264
3 163241485 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:159:0,78:0,55:259
3 163241597 . C A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:138:1,70:0,54:101
3 163242287 . T TA 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:150:3,68:3,49:118
3 168353287 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:424:1,224:0,64:289
3 176824386 . A G 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:170:55,112:0,51:218
3 176824387 . A G 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:172:55,113:0,51:220
3 183366992 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1117:0,297:83,617:490
3 183739811 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:314:0,107:0,44:197
3 187264638 . C T 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1084:0,312:0,556:400
4 5763096 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:233:0,58:0,46:229
4 12934508 . A ATTAGGTGAATGCATTCAGATAGAATAACAT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_51to200bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:57:2,55:2,55:60
4 48415244 . A T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:185:2,32:0,69:114
4 48415379 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:145:0,69:0,69:52
4 48415385 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:142:0,68:0,68:54
4 48415386 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:142:0,68:0,68:55
4 48415641 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:154:0,83:0,67:110
4 48415940 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:148:0,83:0,67:103
4 48416036 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:151:0,74:0,68:84
4 48416072 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:0,73:0,68:78
4 48416076 . G GT 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:12,53:12,48:67
4 55623574 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:124:0,31:0,47:153
4 55624564 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:242:0,82:0,45:208
4 57227087 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1201:0,377:70,657:491
4 57259175 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1183:1,337:47,651:467
4 74916978 . T A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:930:1,265:62,427:548
4 84226777 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:886:1,314:66,419:488
4 84332563 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1278:1,371:98,691:569
4 86251968 . A T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:256:0,63:0,69:250
4 86252059 . C A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,16:0,67:112
4 86252096 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:198:0,24:0,67:202
4 86252832 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:206:0,113:0,68:192
4 86253385 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:133:0,68:0,65:68
4 86253412 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:130:0,64:0,64:55
4 86253422 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:130:0,65:0,65:55
4 86253426 . C G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:130:0,65:0,65:60
4 86254385 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:225:3,52:0,65:235
4 128261324 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable;filt=CS_CGnormal_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:831:0,195:0,416:545
4 155282605 . T A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:307:0,79:0,65:305
4 160071506 . T A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1310:3,434:73,687:567
4 161029414 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:180:0,45:0,40:186
4 188609257 . G C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_10XLRGATK_filt,CS_CGnormal_filt,CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:890:1,253:3,374:526
5 1714808 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:2,60:2,57:66
5 1714810 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,62:0,59:71
5 1715080 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:0,60:0,60:114
5 1715082 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:0,60:0,60:114
5 12454589 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:230:2,88:0,64:207
5 15908525 . G A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,28:0,46:139
5 15910106 . C G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:361:0,45:0,90:294
5 52088984 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:51
5 52088991 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:49
5 52088995 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,60:0,60:49
5 52089025 . A C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:54
5 52089026 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:54
5 52089029 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:51
5 52089077 . A AT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:7,55:7,55:43
5 52089080 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:61
5 52089083 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,63:0,63:51
5 52089097 . T A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,62:0,62:66
5 52089101 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,61:0,61:69
5 52089112 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,62:0,62:60
5 52089151 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,61:0,53:92
5 52089160 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,61:0,53:96
5 52089171 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,61:0,53:93
5 52089175 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,61:0,53:101
5 54199844 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:158:0,21:0,62:127
5 54199845 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:157:0,20:0,62:131
5 54199855 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:160:1,80:0,62:111
5 54199857 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:159:0,80:0,62:112
5 54199858 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:160:0,81:0,62:116
5 61260788 . T C 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250Sentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:194:85,157:0,47:218
5 63277633 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:196:0,96:0,70:129
5 63277697 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:131:0,68:0,63:45
5 63277708 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:1,68:0,63:56
5 63277714 . T G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:131:0,68:0,63:57
5 63277723 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,69:0,63:58
5 63277759 . T TAAAAGTGA 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:133:1,65:1,65:62
5 63277767 . T A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:134:0,70:0,70:66
5 63277768 . C A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:133:0,69:0,69:64
5 63277787 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:139:0,70:0,70:107
5 63277793 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,4:0,71:123
5 69972559 . C T 50 PASS platforms=2;platformnames=10X,PacBio;datasets=2;datasetnames=10XChromiumLR,CCS15kb_20kb;callsets=2;callsetnames=10XLRGATK,CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:76:0,15:2,59:108
5 113488333 . T TGCTGCTGCC 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllTandemRepeats_51to200bp_slop5,GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:56:8,48:8,48:55
5 114046580 . GTATATACACATATATACACGTGTGTGTA G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:108:4,52:4,52:55
5 119687128 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:128:0,11:0,53:93
5 119687156 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:144:0,71:0,53:112
5 119689159 . A C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,64:0,55:86
5 119689303 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,62:0,55:144
5 119689495 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,65:0,54:132
5 119690022 . C A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:202:0,47:0,59:195
5 120048042 . C CTA 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:68:5,63:5,63:57
5 147943404 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,2:0,55:66
5 147943411 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:107:0,56:0,56:62
5 147943412 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeq250x250;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:0,58:0,58:60
5 147945940 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:112:0,57:0,50:83
5 164372683 . T A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1228:1,373:61,651:561
6 6141362 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:221:0,54:0,63:172
6 6141375 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:195:0,40:0,63:177
6 6141380 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:182:0,36:0,63:177
6 6141430 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:120:0,63:0,61:63
6 6141445 . A C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:112:0,59:0,59:87
6 6141454 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,63:0,63:99
6 6141479 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:122:0,64:0,64:125
6 6141481 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:123:0,65:0,64:70
6 6141491 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:0,66:0,64:64
6 6141598 . T G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,61:0,61:69
6 6141616 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,63:0,63:64
6 6141691 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:134:0,65:0,60:73
6 6141706 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:129:1,64:1,60:77
6 6141742 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:131:0,62:0,51:187
6 6141768 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,63:0,51:57
6 6141774 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,63:0,51:43
6 6141856 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:128:0,65:0,57:81
6 6141873 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:134:0,71:0,62:91
6 6142028 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:123:0,69:0,60:89
6 6142071 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,62:0,60:75
6 6142090 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,60:0,60:60
6 6142113 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:129:0,64:0,59:79
6 6142236 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:145:0,71:0,60:99
6 6142253 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:145:0,70:0,59:97
6 6142265 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:141:0,70:0,60:95
6 6142288 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:0,66:0,58:86
6 6142362 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,59:0,59:54
6 6142363 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,60:0,60:51
6 6142368 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,60:0,60:64
6 6142413 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:0,59:0,59:100
6 6142420 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:112:0,57:0,57:98
6 6142449 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:1,60:1,58:64
6 6142476 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:122:0,64:0,60:61
6 6142539 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,60:0,60:109
6 6142553 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,60:0,60:107
6 6142563 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,60:0,60:110
6 6142631 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:122:0,62:0,59:66
6 6142654 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:124:0,64:0,60:72
6 6142688 . T G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,60:0,60:60
6 6142689 . T A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,60:0,60:57
6 6142703 . A G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:111:0,56:0,56:64
6 6142728 . C CTGTT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:2,57:2,57:63
6 6142837 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,74:0,62:95
6 6142866 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:151:0,75:0,62:100
6 6142960 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:130:0,68:0,63:79
6 6142999 . C CT 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:122:0,63:0,63:95
6 12211273 . G A 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:202:44,127:0,59:207
6 20615606 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:241:3,139:0,50:325
6 28643888 . T A 30 . . GT:AD:PS 1/1:0,2
6 30786334 . T TC 30 . . GT:AD:PS 1/1:0,2
6 30786923 . T TAAAAAAGAAAAGGAGGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGATCGAGACCATCCCGGCTAAAACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGTAGTGGCGGGCGCCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAGGCGGAGCTTGCAGTGAGCCGAGATCCCGCCACTGCACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAAA 30 . . GT:AD:PS 1/1:0,2
6 31487370 . T C 30 . . GT:AD:PS 1/1:0,2
6 31487371 . G A 30 . . GT:AD:PS 1/1:0,2
6 31487373 . A G 30 . . GT:AD:PS 1/1:0,2
6 31829003 . G A 30 . . GT:AD:PS 1/1:0,2
6 31987720 . G A 30 . . GT:AD:PS 1/1:0,2
6 32002226 . G A 30 . . GT:AD:PS 1/1:0,2
6 32017141 . C A 30 . . GT:AD:PS 1/1:0,2
6 32017216 . G A 30 . . GT:AD:PS 1/1:0,2
6 32026107 . G T 30 . . GT:AD:PS 1/1:0,2
6 58294115 . T TAAAACAAAACAATA 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250;callsets=7;callsetnames=CCS15kb_20kbDV,HiSeqPE300xSentieon,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:320:1,82:19,46:252
6 65688918 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:871:0,409:0,47:394
6 65778953 . T A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:983:0,296:48,533:436
6 65779506 . G GA 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,HiSeqPE300xSentieon,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:676:2,294:10,43:307
6 65807678 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1284:0,382:101,707:573
6 67257130 . C CT 50 PASS platforms=2;platformnames=Illumina,PacBio;datasets=4;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CCS15kb_20kb,CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable;filt=CS_CGnormal_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:752:22,366:3,236:279
6 67258670 . G A 50 PASS platforms=5;platformnames=PacBio,10X,Illumina,CG,Solid;datasets=7;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:1064:60,498:1,103:547
6 67273980 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1265:0,403:32,659:559
6 67443798 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_CGnormal_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1177:3,439:0,512:564
6 67492371 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1190:0,336:56,651:490
6 67515166 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1028:0,299:45,565:465
6 67550603 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:897:1,324:37,427:480
6 67559673 . C A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1066:1,344:79,503:690
6 67624654 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CGnormal_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1205:1,472:0,541:484
6 67643913 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1181:0,440:64,594:483
6 67656444 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1100:0,365:88,567:482
6 67679492 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1265:0,486:68,614:565
6 67716419 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1247:0,440:39,602:599
6 67749736 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1144:1,380:81,544:605
6 67778254 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1084:0,350:74,546:498
6 68518210 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:340:0,106:0,64:256
6 68518212 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:338:0,104:0,64:258
6 70013590 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,71:0,58:105
6 70015734 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:144:0,72:0,60:99
6 74247072 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:0,70:0,64:81
6 74247078 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:123:0,68:0,64:80
6 74247103 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:0,64:0,61:61
6 74247122 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:1,61:1,59:67
6 74247145 . C A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,63:0,63:59
6 74247188 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,62:0,62:58
6 74247192 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,63:0,63:61
6 74247290 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:151:0,15:1,60:102
6 103590004 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:182:0,28:0,60:183
6 103590006 . A AAC 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:176:0,24:0,60:188
6 103713004 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:270:2,65:0,66:317
6 103713070 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:311:1,87:0,67:287
6 103721873 . A ATATTATATATTTATAT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:65:4,56:4,56:52
6 103721874 . A AT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:65:5,59:5,59:60
6 104493773 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:133:0,67:0,56:99
6 108374541 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1383:0,481:81,693:563
6 112704545 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:151:0,23:0,60:154
6 112705127 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:131:0,80:0,51:118
6 112705403 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:126:0,71:0,60:93
6 112705872 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:129:1,73:0,59:91
6 112706052 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,73:0,58:103
6 112706063 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,73:0,57:107
6 112706353 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:139:2,83:0,57:107
6 112706693 . T TAAAAG 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:3,56:3,56:61
6 112707161 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:164:2,35:0,60:107
6 112708878 . G T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:157:1,86:0,60:106
6 112709136 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:225:2,71:0,60:236
6 117246815 . A C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:190:0,44:0,55:192
6 132760055 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1202:0,356:81,639:706
6 156036856 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:134:0,77:0,60:111
6 167175851 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:135:1,75:0,56:94
7 5121644 . T TCTG 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:264:82,138:0,44:322
7 5156424 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:221:0,33:0,69:373
7 8957401 . C A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:324:3,84:0,74:185
7 8957492 . G A 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:165:10,90:0,75:98
7 8957505 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,CG;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CGnormal,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:189:16,36:0,74:164
7 15343329 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeq250x250Sentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1244:0,412:82,538:559
7 20546193 . C G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeq250x250freebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1336:1,427:56,650:553
7 20547235 . C T 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:887:60,440:0,61:499
7 20606513 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CGnormal_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1045:0,351:0,476:455
7 20930503 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1182:0,301:77,645:491
7 20965802 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1367:0,408:77,740:510
7 80075932 . C T 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CCS15kb_20kbDV_filt,CS_CCS15kb_20kbGATK4_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:622:0,179:1,294:361
7 95181640 . AATATATATATTCCGTCACATATATATAGAAT A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,GRCh38_AllTandemRepeats_lt51bp_slop5:GRCh38_AllTandemRepeats_lt51bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:59:5,54:5,54:56
7 97618279 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:156:0,26:0,53:188
7 102477346 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:160:0,30:0,52:150
7 102480945 . AC A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:96:1,49:1,49:61
7 102480980 . T C 50 PASS platforms=2;platformnames=PacBio,10X;datasets=2;datasetnames=CCS15kb_20kb,10XChromiumLR;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:99:0,53:0,51:68
7 102481047 . T TTGCTGTAAGTCACC 50 PASS platforms=2;platformnames=PacBio,CG;datasets=2;datasetnames=CCS15kb_20kb,CGnormal;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CGnormal_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:105:10,56:2,48:78
7 111963677 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:187:5,63:0,49:123
7 111964228 . G GAGA 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:177:1,69:0,46:229
7 111965109 . C A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:306:0,73:1,71:261
7 111965221 . T G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:264:2,127:0,48:300
7 111965920 . C A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:277:0,76:0,74:343
7 111966218 . C G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:0,20:0,48:120
7 111966917 . A C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,62:0,52:91
7 111967337 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:0,64:0,54:89
7 111967824 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:138:0,68:1,71:144
7 111968299 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:0,59:0,54:74
7 111968395 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:127:0,21:0,53:124
7 111968533 . A T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,65:0,54:91
7 111968700 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:214:0,53:0,55:220
7 132889335 . C CA 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1117:40,539:10,361:396
7 132933655 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:983:0,308:96,512:496
7 133025268 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1076:0,355:61,530:484
7 133051652 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1230:1,418:74,610:603
7 133105774 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1092:0,317:103,575:702
7 133116787 . T G 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:835:0,234:0,406:388
7 133129174 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1011:0,269:102,573:478
7 141410324 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:997:0,275:103,554:569
7 141435612 . TAAG T 50 PASS platforms=5;platformnames=PacBio,10X,CG,Illumina,Solid;datasets=7;datasetnames=CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:842:0,222:56,154:613
7 141461339 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1032:0,294:113,565:542
7 141506546 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1027:1,288:86,567:583
7 153988890 . G A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:193:0,52:0,55:224
8 6964896 . G C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1083:1,263:87,584:683
8 6966029 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:972:0,262:87,528:559
8 6971112 . G A 50 PASS platforms=5;platformnames=PacBio,Illumina,10X,CG,Solid;datasets=7;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CGnormal_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups GT:PS:DP:ADALL:AD:GQ 1/1:.:1109:144,607:0,51:512
8 6971684 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:1075:0,466:1,95:391
8 6977324 . GT G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=2;callsetnames=CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_CCS15kb_20kbGATK4_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:70:8,43:8,43:41
8 7021788 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups GT:PS:DP:ADALL:AD:GQ 1/1:.:165:0,33:1,58:157
8 7021794 . G GAC 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups GT:PS:DP:ADALL:AD:GQ 1/1:.:114:0,2:0,58:69
8 7021961 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqPE300x;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,1:0,50:75
8 7025308 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups GT:PS:DP:ADALL:AD:GQ 1/1:.:957:0,396:0,113:382
8 7028764 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,Solid;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=CGnormal,IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:940:0,318:5,456:490
8 7029649 . C G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,Solid;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=CGnormal,IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:939:0,290:0,466:497
8 7030564 . C G 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1167:0,396:0,614:388
8 7035922 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeq250x250freebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:803:0,209:54,348:544
8 7040080 . A T 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:989:0,288:2,532:388
8 7040230 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,Solid;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=CGnormal,IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1179:0,378:2,599:495
8 7223065 . G T 50 PASS platforms=3;platformnames=10X,Illumina,PacBio;datasets=3;datasetnames=10XChromiumLR,HiSeqPE300x,CCS15kb_20kb;callsets=5;callsetnames=10XLRGATK,HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_CCS15kb_20kbGATK4_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:51:0,9:0,33:123
8 7231713 . T G 50 PASS platforms=3;platformnames=10X,Illumina,PacBio;datasets=4;datasetnames=10XChromiumLR,HiSeqPE300x,CCS15kb_20kb,HiSeqMatePair;callsets=5;callsetnames=10XLRGATK,HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:57:0,20:1,30:153
8 7231720 . G A 50 PASS platforms=3;platformnames=10X,Illumina,PacBio;datasets=3;datasetnames=10XChromiumLR,HiSeqPE300x,CCS15kb_20kb;callsets=4;callsetnames=10XLRGATK,HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeqPE300xfreebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:51:0,20:1,28:101
8 7233727 . T C 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:57:0,18:0,27:197
8 7234785 . C G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:62:0,18:0,39:161
8 7235422 . T C 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:55:0,18:0,29:168
8 7239038 . A G 50 PASS platforms=3;platformnames=10X,Illumina,PacBio;datasets=4;datasetnames=10XChromiumLR,HiSeqPE300x,CCS15kb_20kb,HiSeqMatePair;callsets=5;callsetnames=10XLRGATK,HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:66:0,19:0,31:208
8 7239169 . A G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:60:0,16:0,36:117
8 7239176 . A G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:56:0,16:0,33:117
8 7241342 . T G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:47:0,9:0,31:164
8 7241830 . A C 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:49:0,9:0,25:197
8 7244202 . A C 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:52:0,2:0,37:203
8 7246539 . A G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=4;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=4;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:59:0,5:0,32:275
8 7246567 . A G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=4;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:57:0,7:0,30:194
8 7247005 . A G 50 PASS platforms=3;platformnames=10X,PacBio,Illumina;datasets=3;datasetnames=10XChromiumLR,CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=10XLRGATK,CCS15kb_20kbDV,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:43:0,5:0,29:176
8 7842444 . G A 50 PASS platforms=2;platformnames=10X,PacBio;datasets=2;datasetnames=10XChromiumLR,CCS15kb_20kb;callsets=2;callsetnames=10XLRGATK,CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:57:0,8:9,40:106
8 34773158 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1066:0,289:69,594:500
8 34831630 . TATATAA T 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable;filt=CS_CCS15kb_20kbGATK4_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_51to200bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:845:3,449:0,275:338
8 34945280 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1231:4,426:86,610:535
8 35053546 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1112:0,389:79,561:501
8 35086824 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1166:2,433:30,550:479
8 35223765 . G T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1191:1,460:51,570:583
8 35316102 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1199:0,429:91,578:610
8 35451177 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:987:1,345:78,491:495
8 35813153 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:943:0,314:51,467:504
8 35938393 . C G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:862:0,301:50,419:501
8 35955035 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:891:0,259:88,459:502
8 36137460 . T A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1129:0,354:79,600:584
8 36293403 . A C 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=4;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=6;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=CCS15kb_20kb,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable;filt=CS_CCS15kb_20kbDV_filt,CS_CCS15kb_20kbGATK4_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:440:18,169:3,96:260
8 36380295 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:946:0,325:44,468:488
8 36494240 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1225:1,419:72,589:580
8 39965525 . T TATA 50 PASS platforms=2;platformnames=PacBio,CG;datasets=2;datasetnames=CCS15kb_20kb,CGnormal;callsets=2;callsetnames=CCS15kb_20kbDV,CGnormal;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_CGnormal_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:84:30,82:1,53:89
8 39965526 . T TA 50 PASS platforms=2;platformnames=PacBio,CG;datasets=2;datasetnames=CCS15kb_20kb,CGnormal;callsets=2;callsetnames=CCS15kb_20kbDV,CGnormal;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_CGnormal_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:83:31,80:2,51:94
8 40433503 . A C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:200:3,53:0,52:174
8 40434990 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:153:2,44:0,54:147
8 72150283 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:197:2,105:0,57:128
8 74944791 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:369:0,109:1,83:311
8 74947437 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:1,60:1,60:118
8 74947440 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:0,61:0,61:124
8 75278707 . C A 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250Sentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:164:48,124:0,39:256
8 75278709 . A G 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250Sentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:162:48,122:0,39:253
8 75278720 . A G 50 PASS platforms=3;platformnames=PacBio,CG,Illumina;datasets=3;datasetnames=CCS15kb_20kb,CGnormal,HiSeq250x250;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeq250x250Sentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:34,107:0,38:233
8 82748272 . C CACA 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_CGnormal_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:67:1,66:1,66:55
8 95553696 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:127:0,68:0,68:69
8 121051377 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:203:0,106:0,55:171
8 121051378 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:203:0,106:0,55:174
8 128329023 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:54:0,54:0,54:60
8 132620554 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:896:0,218:67,489:504
8 132728275 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:985:1,289:43,450:597
8 132827019 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:940:0,291:85,490:484
8 132890609 . G C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1005:0,337:54,488:580
8 141636512 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:972:0,275:78,536:474
9 125903 . A C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:134:0,71:0,58:146
9 24731138 . CAGAA C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:802:0,200:70,360:609
9 28348387 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:850:0,228:48,455:509
9 28408831 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,Solid;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=CGnormal,IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:985:2,396:1,355:562
9 28490754 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1157:0,356:49,628:482
9 28637776 . A C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:868:3,404:0,56:296
9 38775651 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:229:0,25:0,114:257
9 38787490 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:141:0,46:0,89:200
9 40188238 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,55:0,35:83
9 40690295 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbGATK4,CCS15kb_20kbDV,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,83:0,27:189
9 40701275 . GATTAA G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR;callsets=5;callsetnames=CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,HiSeqPE300xfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:204:0,77:0,45:258
9 40722703 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:160:0,106:0,49:187
9 64341145 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:184:1,13:1,87:173
9 64461912 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,42:0,78:142
9 64475486 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250freebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:0,62:0,57:30
9 64530979 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:175:1,58:0,47:251
9 64543136 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbGATK4,CCS15kb_20kbDV,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:118:0,71:0,39:192
9 67103610 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:260:0,55:1,97:236
9 87781829 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1418:0,422:80,763:577
9 98164343 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1042:0,317:111,519:573
9 98171841 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:803:2,257:56,418:602
9 98199422 . C T 50 PASS platforms=5;platformnames=PacBio,10X,CG,Illumina,Ion;datasets=7;datasetnames=CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome;callsets=11;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqPE300xSentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,IonExomeTVC;datasetsmissingcall=SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1632:0,171:98,316:594
9 98200345 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Ion;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,IonExomeTVC;datasetsmissingcall=SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1754:0,158:118,414:539
9 98208742 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Ion;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,IonExome;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,IonExomeTVC;datasetsmissingcall=SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1694:0,327:98,563:583
9 98277050 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1083:0,331:126,575:487
9 98283110 . T TC 50 PASS platforms=3;platformnames=Illumina,PacBio,CG;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CCS15kb_20kb,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:906:78,447:11,293:361
9 98285987 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:992:0,326:61,483:499
9 98359702 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:993:0,279:98,503:480
9 98513188 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:1094:4,503:0,59:377
9 98668884 . TG T 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:532:12,452:0,250:280
9 98668886 . TG T 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;filt=CS_CCS15kb_20kbDV_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:464:7,327:0,181:297
9 124458048 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:933:0,239:124,518:546
9 124679735 . C CA 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:696:18,318:1,189:276
9 124812264 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:903:0,242:87,403:531
10 1246418 . T A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:123:0,13:0,50:148
10 1246424 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:0,8:0,50:77
10 1246433 . G A 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:94:0,49:0,49:62
10 1246434 . A T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:95:0,49:0,49:54
10 1246439 . C T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:95:0,50:0,50:50
10 1246445 . T C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:95:0,49:0,49:53
10 1246478 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:102:0,50:0,50:64
10 1246480 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:102:0,50:0,50:61
10 1246505 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:97:0,52:0,50:67
10 1246617 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,56:0,50:120
10 1246619 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,58:0,51:113
10 1246655 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:152:1,36:0,44:145
10 1246659 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:158:1,42:0,44:157
10 1246663 . TTTCTGAGGGCTCTG T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:163:1,52:0,44:186
10 1246690 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:189:1,69:0,44:222
10 1246691 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:191:1,71:0,44:210
10 1246695 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:199:3,77:0,44:224
10 1246697 . ATC A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:202:1,80:0,44:224
10 11732346 . A C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:128:0,62:0,58:122
10 11732361 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:128:0,62:0,58:122
10 11732401 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:127:0,63:0,58:76
10 11732589 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,66:0,57:88
10 11732605 . G T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:133:0,68:0,57:95
10 11732837 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,70:0,56:105
10 11732914 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:148:0,68:0,56:93
10 11732919 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:152:0,68:0,56:98
10 11733238 . TTGTC T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:177:1,93:1,55:174
10 11733735 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:135:0,69:0,59:94
10 11733754 . A T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:129:0,64:0,59:81
10 11733835 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:138:1,65:1,57:84
10 11733992 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:1,61:1,58:158
10 11734309 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:132:0,67:0,58:140
10 11734383 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,67:0,58:125
10 11734521 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:120:0,66:0,57:85
10 11734614 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,56:0,56:55
10 11734615 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:117:0,56:0,56:63
10 11734651 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,58:0,56:72
10 11734689 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:126:0,61:0,54:76
10 11734997 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:153:0,24:0,56:136
10 11735208 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:254:1,96:0,56:258
10 11735979 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:167:0,82:0,57:135
10 11736211 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:120:1,63:1,56:93
10 11736233 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:116:0,61:0,56:84
10 11736300 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:127:0,64:0,56:74
10 11736399 . C G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:140:0,74:0,56:115
10 11736546 . G T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:1,55:1,55:58
10 11736547 . CT C 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:110:4,52:4,52:50
10 11736550 . T G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:4,52:4,52:49
10 11736680 . G C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,75:1,77:166
10 11736964 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:163:0,24:0,54:141
10 33511450 . G T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:105:0,61:0,48:99
10 33512898 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:113:1,58:1,51:82
10 36403006 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:945:0,401:0,93:391
10 36432999 . C T 50 PASS platforms=4;platformnames=PacBio,10X,Illumina,CG;datasets=6;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups GT:PS:DP:ADALL:AD:GQ 1/1:.:850:59,377:3,113:502
10 47462370 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:146:1,58:1,67:117
10 49956571 . G GCTA 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:3,64:1,54:129
10 49956981 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:217:0,33:1,79:273
10 49957008 . T A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:237:1,69:0,55:303
10 63719688 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1140:0,359:56,625:481
10 71235343 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:870:0,208:104,502:477
10 79524370 . C T 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:500:186,312:0,53:428
10 79525077 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,42:0,53:184
10 79525147 . C G 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:201:48,86:0,53:264
10 79525166 . A G 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,hg38.segdups_sorted_merged,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:252:95,135:1,52:279
10 85357633 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:107:0,54:0,45:118
10 95491371 . A C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1101:0,323:118,605:581
10 95512646 . G C 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:917:2,276:86,501:588
10 95666936 . ATTATCT A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1024:0,359:66,408:641
10 95722218 . A T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1114:2,401:43,538:493
10 95820683 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:982:0,286:104,527:472
10 95949413 . A C 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CGnormal_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:613:29,275:0,62:401
10 96052287 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1351:1,451:70,677:481
10 96128101 . A T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1331:0,523:86,664:509
10 96128657 . TG T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1316:66,667:1,425:475
10 96178746 . A T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1334:1,464:84,676:494
10 96213560 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1266:0,391:133,654:602
10 96331978 . A T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1142:2,353:139,590:586
10 96383417 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:889:4,276:90,457:455
10 96392931 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1185:1,364:65,587:500
10 96473134 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1114:1,356:118,563:607
10 96515515 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1321:1,440:105,632:679
10 96577440 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1172:0,440:75,563:586
10 96628793 . A C 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairfreebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable,CS_HiSeqMatePairfreebayes_callable;filt=CS_CCS15kb_20kbDV_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1019:0,385:0,388:539
10 96628795 . T A 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable;filt=CS_CCS15kb_20kbDV_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1028:0,478:0,350:417
10 96635964 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1076:2,355:33,504:460
10 96682498 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_10XLRGATK_filt,CS_SolidSE75GATKHC_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1049:1,371:82,518:574
10 96748838 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:847:1,266:91,422:481
10 96805431 . TAAATAAATA T 50 PASS platforms=4;platformnames=PacBio,Illumina,10X,CG;datasets=6;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,HiSeqPE300xSentieon,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:700:25,286:3,49:306
10 96839692 . C CT 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=4;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=7;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,GRCh38_SimpleRepeat_imperfecthomopolgt10_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:904:18,418:5,303:271
10 96871569 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,CCS15kb_20kbDV,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CCS15kb_20kbGATK4_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:899:0,282:104,334:598
10 96873637 . C G 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:850:1,306:0,358:369
10 96891332 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeq250x250freebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1052:0,348:63,526:504
10 96913515 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1358:1,441:89,669:508
10 96922402 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1268:1,417:74,638:493
10 96941008 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,HiSeqPE300xSentieon,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:298:20,178:0,60:97
10 96944529 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1108:0,378:89,457:537
10 96997827 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,CGnormal,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeq250x250Sentieon,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_HiSeq250x250Sentieon_callable;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1039:70,403:1,443:516
10 97022478 . T G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,CGnormal,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeq250x250Sentieon,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_HiSeq250x250Sentieon_callable;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1053:108,432:2,452:481
10 97108345 . AAGG A 50 PASS platforms=4;platformnames=PacBio,CG,Illumina,10X;datasets=6;datasetnames=CCS15kb_20kb,CGnormal,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:953:2,443:53,91:556
10 97114053 . G C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:906:1,339:41,411:592
10 97116610 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:947:0,287:88,495:483
10 97317062 . T C 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:914:0,326:54,368:549
10 97326312 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1113:0,405:102,567:573
10 97375874 . C A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1006:0,342:44,502:474
10 97423821 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1004:0,294:121,525:488
10 97432347 . G A 50 PASS platforms=5;platformnames=PacBio,Illumina,10X,CG,Solid;datasets=7;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.segdups_sorted_merged GT:PS:DP:ADALL:AD:GQ 1/1:.:1109:103,598:0,51:557
10 97775068 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1019:1,348:67,499:530
10 97786751 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:955:1,288:85,490:498
10 97905527 . T C 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:949:1,287:115,485:554
10 97971610 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,10XChromiumLR;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairfreebayes,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeqMatePairfreebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1153:2,329:103,592:547
10 98038102 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:994:1,315:60,492:491
10 98104998 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1116:0,367:65,546:500
10 98180212 . C G 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1205:2,435:0,561:390
10 98224091 . C G 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqPE300xfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:841:0,274:73,392:570
10 98285116 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1089:0,369:68,540:486
10 98295794 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1023:1,373:79,491:576
10 98313499 . C T 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1103:0,383:77,552:480
10 98402545 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1169:1,297:124,668:489
10 98410013 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1093:0,361:76,543:496
10 98466028 . C G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1115:2,321:51,588:555
10 98783938 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:167:1,92:0,74:105
10 98784019 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:172:0,98:0,73:138
10 98784258 . G A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=4;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:262:0,44:0,106:291
10 98784560 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:167:0,87:0,71:112
10 98784850 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:177:1,87:1,72:106
10 98785337 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:0,79:0,70:90
10 98785339 . T G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:0,79:0,70:88
10 98786073 . G A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:231:2,34:0,71:148
10 98786102 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:250:2,47:0,70:137
10 98787209 . A T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,80:1,90:108
10 98787458 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:153:0,85:0,72:100
10 98787841 . T A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:181:0,29:0,71:153
10 98787921 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:214:0,47:0,72:207
10 98961739 . T G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:135:2,30:0,52:150
10 111585057 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:149:0,12:0,61:76
10 111585078 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_CCS15kb_20kbDV_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:139:0,70:0,62:84
10 111585247 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:126:0,66:0,66:79
10 111585384 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:125:0,67:0,65:66
10 111585404 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:126:0,68:0,66:65
10 111589150 . C A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:169:0,77:0,65:92
10 115583457 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:0,6:0,51:76
10 115583461 . G T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:119:0,6:0,51:76
10 115583489 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:147:0,19:0,51:159
10 115586267 . G A 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:150:0,30:0,57:149
10 115586292 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqPE300x,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:157:0,36:0,56:165
11 2035124 . C G 50 PASS platforms=4;platformnames=10X,PacBio,CG,Illumina;datasets=4;datasetnames=10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeqMatePair;callsets=5;callsetnames=10XLRGATK,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_10XLRGATK_callable;filt=CS_CCS15kb_20kbDV_filt,CS_CCS15kb_20kbGATK4_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:115:43,58:0,34:290
11 5223561 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_10XLRGATK_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1150:0,315:50,561:488
11 5226551 . A C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1233:0,326:97,684:513
11 7063878 . A G 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1145:0,324:103,624:560
11 7380290 . G T 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,Solid;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=CGnormal,IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1097:1,365:1,525:504
11 7403580 . G C 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,HiSeq250x250,10XChromiumLR,CGnormal,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,HiSeq250x250Sentieon,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_CCS15kb_20kbDV_filt,CS_CGnormal_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:1322:57,518:0,535:405
11 11195159 . T C 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:257:0,132:0,76:162
11 11195160 . C A 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeq250x250;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:256:0,131:0,75:255
11 11199454 . G C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:260:0,68:0,60:268
11 11199456 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:167:0,79:0,60:171
11 14155814 . T TA 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:104:0,56:0,42:98
11 14156033 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:150:0,35:0,42:201
11 14156043 . T TTTCTAG 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:80:1,40:1,40:59
11 14156064 . A G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:111:0,12:0,41:99
11 21921106 . CTTGGATATT C 50 PASS platforms=1;platformnames=Illumina;datasets=3;datasetnames=HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=4;callsetnames=HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CCS15kb_20kbDV_filt,CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;arbitrated=TRUE;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:170:0,0:0,0:321
11 27221661 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:121:0,56:0,42:199
11 27221692 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:133:0,60:0,42:212
11 27222485 . C G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:148:0,26:0,47:137
11 27225043 . C T 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:160:0,28:0,46:199
11 42458356 . T C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:184:0,38:0,49:269
11 42458358 . G C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:189:0,41:0,51:269
11 42458370 . A C 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:245:0,66:0,51:265
11 80488949 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_HiSeqMatePairfreebayes_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:995:1,264:83,545:582
11 80844219 . G A 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1136:0,304:93,620:591
11 87048248 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeq250x250,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:107:0,58:0,46:152
11 87048683 . A G 50 PASS platforms=2;platformnames=PacBio,10X;datasets=2;datasetnames=CCS15kb_20kb,10XChromiumLR;callsets=3;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:105:0,46:0,60:105
11 87050155 . A G 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=3;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:120:0,60:0,50:179
11 87050439 . A AAG 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=3;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=GRCh38_AllHomopolymers_gt6bp_imperfectgt10bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:109:1,55:1,50:73
11 87051095 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:202:1,59:0,52:211
11 87051516 . T C 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=3;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeqMatePair;callsets=5;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:111:0,3:0,53:107
11 87051609 . C T 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:111:0,59:0,54:70
11 90969780 . T G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:254:1,89:0,45:224
11 91543352 . A ATCTATCTATC 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_lt51bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:62:1,61:1,61:46
11 96936374 . G T 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=2;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:139:0,73:0,73:54
11 99605430 . T G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=2;datasetnames=CCS15kb_20kb,HiSeqMatePair;callsets=4;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqMatePairfreebayes_filt;difficultregion=hg38.rmsk.L1H_gt500,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:93:1,48:1,40:78
11 100290063 . C T 50 PASS platforms=3;platformnames=PacBio,10X,Illumina;datasets=5;datasetnames=CCS15kb_20kb,10XChromiumLR,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:998:2,419:0,109:407
11 100297039 . T C 50 PASS platforms=3;platformnames=Illumina,PacBio,10X;datasets=5;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=9;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1143:0,360:0,591:396
11 107367140 . C G 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:241:0,67:0,49:257
11 110171920 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,10X,CG,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1276:1,394:80,673:589
11 110245335 . A G 50 PASS platforms=4;platformnames=Illumina,PacBio,10X,CG;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,10XChromiumLR,CGnormal,HiSeq250x250,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,10XLRGATK,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_10XLRGATK_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CCS15kb_20kbDV_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1147:0,329:39,597:495
11 110345786 . T A 50 PASS platforms=4;platformnames=PacBio,CG,Illumina,10X;datasets=6;datasetnames=CCS15kb_20kb,CGnormal,HiSeqPE300x,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250freebayes,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250freebayes_callable;filt=CS_CGnormal_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1024:0,417:0,49:593
11 110429821 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1133:1,299:140,585:432
11 110674147 . G A 50 PASS platforms=4;platformnames=Illumina,PacBio,CG,10X;datasets=6;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair;callsets=10;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=IonExome,SolidSE75bp;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable;filt=CS_CCS15kb_20kbDV_filt GT:PS:DP:ADALL:AD:GQ 1/1:.:1192:1,382:55,581:493
11 120288782 . A ATACATACGCACATGTATGTATTACATACGCACATGTATGTAT 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_51to200bp_slop5 GT:PS:DP:ADALL:AD:GQ 1/1:.:54:9,44:9,44:59
12 2280446 . A G 50 PASS platforms=1;platformnames=PacBio;datasets=1;datasetnames=CCS15kb_20kb;callsets=1;callsetnames=CCS15kb_20kbDV;datasetsmissingcall=HiSeqPE300x,10XChromiumLR,CCS15kb_20kb,CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable;filt=CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt;difficultregion=GRCh38_AllTandemRepeats_201to10000bp_slop5,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:61:0,61:0,61:62
12 11148735 . A G 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeqMatePair;callsets=6;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeq250x250,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:143:1,21:0,54:91
12 11148748 . C CT 50 PASS platforms=2;platformnames=PacBio,Illumina;datasets=4;datasetnames=CCS15kb_20kb,HiSeqPE300x,HiSeq250x250,HiSeqMatePair;callsets=7;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=10XChromiumLR,CGnormal,HiSeq250x250,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairSentieon_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:153:0,21:6,47:126
12 11300503 . T A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes;datasetsmissingcall=CGnormal,HiSeqPE300x,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;filt=CS_HiSeqPE300xSentieon_filt,CS_10XLRGATK_filt,CS_HiSeqPE300xfreebayes_filt,CS_HiSeq250x250Sentieon_filt,CS_HiSeq250x250freebayes_filt,CS_HiSeqMatePairfreebayes_filt;difficultregion=AJtrio-HG002.hg38.300x.bam.bilkentuniv.072319.dups,lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:338:11,193:0,54:264
12 41621260 . C T 50 PASS platforms=5;platformnames=Illumina,PacBio,CG,10X,Solid;datasets=7;datasetnames=HiSeqPE300x,CCS15kb_20kb,CGnormal,HiSeq250x250,10XChromiumLR,HiSeqMatePair,SolidSE75bp;callsets=11;callsetnames=HiSeqPE300xSentieon,CCS15kb_20kbDV,CCS15kb_20kbGATK4,CGnormal,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,10XLRGATK,HiSeq250x250freebayes,HiSeqMatePairSentieon,HiSeqMatePairfreebayes,SolidSE75GATKHC;datasetsmissingcall=IonExome;callable=CS_HiSeqPE300xSentieon_callable,CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable,CS_CGnormal_callable,CS_HiSeqPE300xfreebayes_callable,CS_HiSeq250x250Sentieon_callable GT:PS:DP:ADALL:AD:GQ 1/1:.:1212:0,408:88,598:580
12 41676489 . G A 50 PASS platforms=3;platformnames=PacBio,Illumina,10X;datasets=5;datasetnames=CCS15kb_20kb,HiSeqPE300x,10XChromiumLR,HiSeq250x250,HiSeqMatePair;callsets=8;callsetnames=CCS15kb_20kbDV,CCS15kb_20kbGATK4,HiSeqPE300xSentieon,10XLRGATK,HiSeqPE300xfreebayes,HiSeq250x250Sentieon,HiSeq250x250freebayes,HiSeqMatePairSentieon;datasetsmissingcall=CGnormal,HiSeqMatePair,IonExome,SolidSE75bp;callable=CS_CCS15kb_20kbDV_callable,CS_CCS15kb_20kbGATK4_callable;difficultregion=lowmappabilityall GT:PS:DP:ADALL:AD:GQ 1/1:.:790:1,353:0,55:312