Mercurial > repos > iuc > vcfanno
view test-data/vcfanno_result.vcf @ 2:4f3c5e634679 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/vcfanno/ commit b1be52deee49703c602af519df3515e6ae957167
| author | iuc |
|---|---|
| date | Sun, 25 Feb 2024 18:11:24 +0000 |
| parents | cdcaa40e5e45 |
| children |
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##fileformat=VCFv4.1 ##contig=<ID=1> ##contig=<ID=10> ##contig=<ID=11> ##contig=<ID=12> ##contig=<ID=13> ##contig=<ID=14> ##contig=<ID=15> ##contig=<ID=16> ##contig=<ID=17> ##contig=<ID=18> ##contig=<ID=19> ##contig=<ID=2> ##contig=<ID=20> ##contig=<ID=21> ##contig=<ID=22> ##contig=<ID=3> ##contig=<ID=4> ##contig=<ID=5> ##contig=<ID=6> ##contig=<ID=7> ##contig=<ID=8> ##contig=<ID=9> ##contig=<ID=GL000191.1> ##contig=<ID=GL000192.1> ##contig=<ID=GL000193.1> ##contig=<ID=GL000194.1> ##contig=<ID=GL000195.1> ##contig=<ID=GL000196.1> ##contig=<ID=GL000197.1> ##contig=<ID=GL000198.1> ##contig=<ID=GL000199.1> ##contig=<ID=GL000200.1> ##contig=<ID=GL000201.1> ##contig=<ID=GL000202.1> ##contig=<ID=GL000203.1> ##contig=<ID=GL000204.1> ##contig=<ID=GL000205.1> ##contig=<ID=GL000206.1> ##contig=<ID=GL000207.1> ##contig=<ID=GL000208.1> ##contig=<ID=GL000209.1> ##contig=<ID=GL000210.1> ##contig=<ID=GL000211.1> ##contig=<ID=GL000212.1> ##contig=<ID=GL000213.1> ##contig=<ID=GL000215.1> ##contig=<ID=GL000216.1> ##contig=<ID=GL000217.1> ##contig=<ID=GL000218.1> ##contig=<ID=GL000219.1> ##contig=<ID=GL000221.1> ##contig=<ID=GL000222.1> ##contig=<ID=GL000223.1> ##contig=<ID=GL000224.1> ##contig=<ID=GL000225.1> ##contig=<ID=GL000227.1> ##contig=<ID=GL000228.1> ##contig=<ID=GL000230.1> ##contig=<ID=GL000231.1> ##contig=<ID=GL000233.1> ##contig=<ID=GL000235.1> ##contig=<ID=GL000236.1> ##contig=<ID=GL000238.1> ##contig=<ID=GL000240.1> ##contig=<ID=GL000242.1> ##contig=<ID=GL000243.1> ##contig=<ID=GL000244.1> ##contig=<ID=GL000246.1> ##contig=<ID=GL000247.1> ##contig=<ID=GL000248.1> ##contig=<ID=GL000249.1> ##contig=<ID=MT> ##contig=<ID=X> ##contig=<ID=Y> ##FILTER=<ID=PASS,Description="All filters passed"> ##INFO=<ID=AB,Number=A,Type=Float,Description="Allele balance at heterozygous sites: a number between 0 and 1 representing the ratio of reads showing the reference allele to all reads, considering only reads from individuals called as heterozygous"> ##INFO=<ID=ABP,Number=A,Type=Float,Description="Allele balance probability at heterozygous sites: Phred-scaled upper-bounds estimate of the probability of observing the deviation between ABR and ABA given E(ABR/ABA) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=AC,Number=A,Type=Integer,Description="Total number of alternate alleles in called genotypes"> ##INFO=<ID=AC_AFR,Number=A,Type=Integer,Description="African/African American Allele Counts (from input_0.vcf.gz)"> ##INFO=<ID=AC_AMR,Number=A,Type=Integer,Description="American Allele Counts (from input_0.vcf.gz)"> ##INFO=<ID=AC_EAS,Number=A,Type=Integer,Description="East Asian Allele Counts (from input_0.vcf.gz)"> ##INFO=<ID=AF,Number=A,Type=Float,Description="Estimated allele frequency in the range (0,1]"> ##INFO=<ID=AN,Number=1,Type=Integer,Description="Total number of alleles in called genotypes"> ##INFO=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observations, with partial observations recorded fractionally"> ##INFO=<ID=CIGAR,Number=A,Type=String,Description="The extended CIGAR representation of each alternate allele, with the exception that '=' is replaced by 'M' to ease VCF parsing. Note that INDEL alleles do not have the first matched base (which is provided by default, per the spec) referred to by the CIGAR."> ##INFO=<ID=CSQ,Number=.,Type=String,Description="Consequence type as predicted by VEP. Format: Consequence|Codons|Amino_acids|Gene|SYMBOL|Feature|EXON|PolyPhen|SIFT|Protein_position|BIOTYPE"> ##INFO=<ID=DP,Number=1,Type=Integer,Description="Total read depth at the locus"> ##INFO=<ID=DPB,Number=1,Type=Float,Description="Total read depth per bp at the locus; bases in reads overlapping / bases in haplotype"> ##INFO=<ID=DPRA,Number=A,Type=Float,Description="Alternate allele depth ratio. Ratio between depth in samples with each called alternate allele and those without."> ##INFO=<ID=EFF,Number=.,Type=String,Description="Predicted effects for this variant.Format: 'Effect ( Effect_Impact | Functional_Class | Codon_Change | Amino_Acid_Change| Amino_Acid_length | Gene_Name | Transcript_BioType | Gene_Coding | Transcript_ID | Exon_Rank | Genotype_Number [ | ERRORS | WARNINGS ] )' "> ##INFO=<ID=EPP,Number=A,Type=Float,Description="End Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=EPPR,Number=1,Type=Float,Description="End Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between EL and ER given E(EL/ER) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=GTI,Number=1,Type=Integer,Description="Number of genotyping iterations required to reach convergence or bailout."> ##INFO=<ID=ICIEND,Number=2,Type=Integer,Description="CIEND"> ##INFO=<ID=ICIPOS,Number=2,Type=Integer,Description="CIPOS"> ##INFO=<ID=ID,Number=1,Type=String,Description="calculated by first of overlapping values in field ID from input_0.vcf.gz"> ##INFO=<ID=LEN,Number=A,Type=Integer,Description="allele length"> ##INFO=<ID=MEANALT,Number=A,Type=Float,Description="Mean number of unique non-reference allele observations per sample with the corresponding alternate alleles."> ##INFO=<ID=MQM,Number=A,Type=Float,Description="Mean mapping quality of observed alternate alleles"> ##INFO=<ID=MQMR,Number=1,Type=Float,Description="Mean mapping quality of observed reference alleles"> ##INFO=<ID=NS,Number=1,Type=Integer,Description="Number of samples with data"> ##INFO=<ID=NUMALT,Number=1,Type=Integer,Description="Number of unique non-reference alleles in called genotypes at this position."> ##INFO=<ID=ODDS,Number=1,Type=Float,Description="The log odds ratio of the best genotype combination to the second-best."> ##INFO=<ID=OLD_MULTIALLELIC,Number=1,Type=String,Description="Original chr:pos:ref:alt encoding"> ##INFO=<ID=OLD_VARIANT,Number=1,Type=String,Description="Original chr:pos:ref:alt encoding"> ##INFO=<ID=PAIRED,Number=A,Type=Float,Description="Proportion of observed alternate alleles which are supported by properly paired read fragments"> ##INFO=<ID=PAIREDR,Number=1,Type=Float,Description="Proportion of observed reference alleles which are supported by properly paired read fragments"> ##INFO=<ID=PAO,Number=A,Type=Float,Description="Alternate allele observations, with partial observations recorded fractionally"> ##INFO=<ID=PQA,Number=A,Type=Float,Description="Alternate allele quality sum in phred for partial observations"> ##INFO=<ID=PQR,Number=1,Type=Float,Description="Reference allele quality sum in phred for partial observations"> ##INFO=<ID=PRO,Number=1,Type=Float,Description="Reference allele observation count, with partial observations recorded fractionally"> ##INFO=<ID=QA,Number=A,Type=Integer,Description="Alternate allele quality sum in phred"> ##INFO=<ID=QR,Number=1,Type=Integer,Description="Reference allele quality sum in phred"> ##INFO=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count, with partial observations recorded fractionally"> ##INFO=<ID=RPP,Number=A,Type=Float,Description="Read Placement Probability: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=RPPR,Number=1,Type=Float,Description="Read Placement Probability for reference observations: Phred-scaled upper-bounds estimate of the probability of observing the deviation between RPL and RPR given E(RPL/RPR) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=RUN,Number=A,Type=Integer,Description="Run length: the number of consecutive repeats of the alternate allele in the reference genome"> ##INFO=<ID=SAF,Number=A,Type=Integer,Description="Number of alternate observations on the forward strand"> ##INFO=<ID=SAP,Number=A,Type=Float,Description="Strand balance probability for the alternate allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SAF and SAR given E(SAF/SAR) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=SAR,Number=A,Type=Integer,Description="Number of alternate observations on the reverse strand"> ##INFO=<ID=SRF,Number=1,Type=Integer,Description="Number of reference observations on the forward strand"> ##INFO=<ID=SRP,Number=1,Type=Float,Description="Strand balance probability for the reference allele: Phred-scaled upper-bounds estimate of the probability of observing the deviation between SRF and SRR given E(SRF/SRR) ~ 0.5, derived using Hoeffding's inequality"> ##INFO=<ID=SRR,Number=1,Type=Integer,Description="Number of reference observations on the reverse strand"> ##INFO=<ID=TYPE,Number=A,Type=String,Description="The type of allele, either snp, mnp, ins, del, or complex."> ##INFO=<ID=coverage,Number=1,Type=Float,Description="calculated by sum of overlapping values in field coverage from input_1.bam"> ##INFO=<ID=lua_end,Number=1,Type=String,Description="calculated by first of overlapping values in column 4 from input_2.bed.gz"> ##INFO=<ID=lua_len,Number=1,Type=String,Description="calculated by first of overlapping values in column 4 from input_2.bed.gz"> ##INFO=<ID=lua_loc,Number=1,Type=String,Description="calculated by first of overlapping values in column 4 from input_2.bed.gz"> ##INFO=<ID=lua_mean,Number=1,Type=String,Description="calculated by first of overlapping values in column 4 from input_2.bed.gz"> ##INFO=<ID=lua_start,Number=1,Type=String,Description="calculated by first of overlapping values in column 4 from input_2.bed.gz"> ##INFO=<ID=mapq,Number=1,Type=Float,Description="calculated by mean of overlapping values in field mapq from input_1.bam"> ##INFO=<ID=xdp2,Number=2,Type=Integer,Description="calculated by coverage from input_1.bam values are numbers of forward,reverse reads"> ##FORMAT=<ID=AO,Number=A,Type=Integer,Description="Alternate allele observation count"> ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Read Depth"> ##FORMAT=<ID=GL,Number=G,Type=Float,Description="Genotype Likelihood, log10-scaled likelihoods of the data given the called genotype for each possible genotype generated from the reference and alternate alleles given the sample ploidy"> ##FORMAT=<ID=GQ,Number=1,Type=Float,Description="Genotype Quality, the Phred-scaled marginal (or unconditional) probability of the called genotype"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##FORMAT=<ID=QA,Number=A,Type=Integer,Description="Sum of quality of the alternate observations"> ##FORMAT=<ID=QR,Number=1,Type=Integer,Description="Sum of quality of the reference observations"> ##FORMAT=<ID=RO,Number=1,Type=Integer,Description="Reference allele observation count"> ##fileDate=20140830 ##source=freeBayes v0.9.14 ##reference=/shared/genomes/b37/full/human_g1k_v37.fasta ##phasing=none ##commandline="/mnt/thor_pool1/user_data/cc2qe/code/speedseq/bin/freebayes -f /shared/genomes/b37/full/human_g1k_v37.fasta --region MT:12136..12498 bam/NA12877_S1/NA12877_S1.bam bam/NA12878_S1/NA12878_S1.bam bam/NA12879_S1/NA12879_S1.bam bam/NA12880_S1/NA12880_S1.bam bam/NA12881_S1/NA12881_S1.bam bam/NA12882_S1/NA12882_S1.bam bam/NA12883_S1/NA12883_S1.bam bam/NA12884_S1/NA12884_S1.bam bam/NA12885_S1/NA12885_S1.bam bam/NA12886_S1/NA12886_S1.bam bam/NA12887_S1/NA12887_S1.bam bam/NA12888_S1/NA12888_S1.bam bam/NA12889_S1/NA12889_S1.bam bam/NA12890_S1/NA12890_S1.bam bam/NA12891_S1/NA12891_S1.bam bam/NA12892_S1/NA12892_S1.bam bam/NA12893_S1/NA12893_S1.bam" ##VEP=v76 cache=/shared/external_bin/ensembl-tools-release-76/cache/homo_sapiens/76_GRCh37 db=. ##SnpEffVersion="3.6c (build 2014-05-20), by Pablo Cingolani" ##SnpEffCmd="SnpEff GRCh37.75 " ##vcfanno=0.3.3 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT NA12889 NA12890 NA12877 1 10492 . C T 3055.1 . AB=0.188084;ABP=726.385;AC=9;AF=0.264706;AN=34;AO=167;CIGAR=1X;TYPE=snp;mapq=55.5;coverage=12;xdp2=4,8 GT:DP:RO:QR:AO:QA:GL 0/0:117:117:3837:0:0:0,-10,-10 0/0:113:113:3758:0:0:0,-10,-10 0/0:132:132:4396:0:0:0,-10,-10 1 10583 . G A 1071.5 . AB=0.191964;ABP=372.238;AC=8;AF=0.235294;AN=34;AO=104;CIGAR=1X;TYPE=snp;mapq=52.6667;coverage=3;xdp2=1,2 GT:DP:RO:QR:AO:QA:GL 0/1:61:40:1252:20:580:-10,0,-10 0/0:57:51:1697:6:175:-6.44272,0,-10 0/0:64:56:1738:7:207:-8.6143,0,-10 1 10616 . CCGCCGTTGCAAAGGCGCGCCG C 580.2 . AB=0.4375;ABP=3.55317;AC=31;AF=0.911765;AN=34;AO=54;CIGAR=1M21D1M;TYPE=del;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 1/1:2:0:0:2:35:-3.325,-0.60206,0 1/1:5:0:0:4:106:-9.744,-1.20412,0 1/1:9:0:0:9:208:-10,-2.70927,0 1 10623 . TGCAAAGGC CGCAAAG 580.2 . AB=0.375;ABP=5.18177;AC=3;AF=0.0882353;AN=34;AO=10;CIGAR=7M1X6M2D7M;TYPE=complex GT:DP:RO:QR:AO:QA:GL ./.:2:0:0:0:0:-3.325,-3.325,-3.325 ./.:5:0:0:0:0:-9.744,-9.744,-9.744 ./.:9:0:0:0:0:-10,-10,-10 1 10654 . G C 19.3 . AB=0.26087;ABP=14.4341;AC=2;AF=0.0588235;AN=34;AO=14;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:10:10:273:0:0:0,-3.0103,-10 0/0:10:10:338:0:0:0,-3.0103,-10 0/0:20:19:610:1:7:0,-4.01957,-10 1 10664 . C G 125.0 . AB=0.291667;ABP=30.1537;AC=5;AF=0.147059;AN=34;AO=32;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:10:10:241:0:0:0,-3.0103,-10 0/0:9:9:308:0:0:0,-2.70927,-10 0/0:20:19:530:1:31:0,-1.61957,-10 1 10665 . C G 717.5 . AB=0.406639;ABP=21.2561;AC=17;AF=0.5;AN=34;AO=98;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:10:6:136:4:114:-9.85692,0,-10 0/1:9:4:139:5:139:-10,0,-10 0/1:20:13:390:7:147:-10,0,-10 1 10671 . G C 215.9 . AB=0.304878;ABP=30.1272;AC=7;AF=0.205882;AN=34;AO=33;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:9:9:254:0:0:0,-2.70927,-10 0/0:6:6:163:0:0:0,-1.80618,-10 0/1:12:11:273:1:39:-1.36682,0,-10 1 10683 . G C 244.6 . AB=0.3125;ABP=17.6677;AC=4;AF=0.117647;AN=34;AO=20;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:8:8:264:0:0:0,-2.40824,-10 0/0:8:8:220:0:0:0,-2.40824,-10 0/0:11:11:324:0:0:0,-3.31133,-10 1 10693 . C G 281.7 . AB=0.343284;ABP=17.3031;AC=6;AF=0.176471;AN=34;AO=31;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:8:8:241:0:0:0,-2.40824,-10 0/0:8:8:236:0:0:0,-2.40824,-10 0/0:11:11:359:0:0:0,-3.31133,-10 1 10694 . C G 1824.5 . AB=0.529412;ABP=4.41537;AC=17;AF=0.5;AN=34;AO=99;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:8:4:93:4:132:-10,0,-8.03936 0/1:8:3:76:5:131:-10,0,-6.43328 0/1:11:4:131:7:213:-10,0,-10 1 10700 . G C 365.3 . AB=0.369863;ABP=13.7487;AC=7;AF=0.205882;AN=34;AO=31;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:8:8:274:0:0:0,-2.40824,-10 0/0:9:9:291:0:0:0,-2.70927,-10 0/0:11:11:368:0:0:0,-3.31133,-10 1 10712 . G C 121.1 . AB=0.305556;ABP=14.8328;AC=3;AF=0.0882353;AN=34;AO=17;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:8:8:293:0:0:0,-2.40824,-10 0/0:9:9:318:0:0:0,-2.70927,-10 0/0:11:11:388:0:0:0,-3.31133,-10 1 10722 . C G 230.0 . AB=0.311475;ABP=21.8416;AC=6;AF=0.176471;AN=34;AO=26;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:5:5:184:0:0:0,-1.50515,-10 0/0:9:9:314:0:0:0,-2.70927,-10 0/0:10:10:347:0:0:0,-3.0103,-10 1 10723 . C G 1706.7 . AB=0.516129;ABP=3.36054;AC=17;AF=0.5;AN=34;AO=80;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:4:2:71:2:77:-6.88903,0,-6.31903 0/1:9:4:108:5:189:-10,0,-9.3811 0/1:9:4:141:5:175:-10,0,-10 1 10729 . G C 295.1 . AB=0.367347;ABP=10.4997;AC=6;AF=0.176471;AN=34;AO=21;CIGAR=1X;TYPE=snp;mapq=21;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:2:2:73:0:0:0,-0.60206,-6.935 0/0:8:8:270:0:0:0,-2.40824,-10 0/0:7:7:239:0:0:0,-2.10721,-10 1 10741 . G C 120.7 . AB=0.409091;ABP=4.58955;AC=4;AF=0.125;AN=32;AO=10;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/0:6:6:208:0:0:0,-1.80618,-10 0/0:4:4:139:0:0:0,-1.20412,-10 1 17594 . C T 58.3 . AB=0.235294;ABP=13.3567;AC=1;AF=0.0294118;AN=34;AO=4;CIGAR=1X;TYPE=snp;mapq=40;coverage=7;xdp2=0,7 GT:DP:RO:QR:AO:QA:GL 0/0:26:26:916:0:0:0,-7.82678,-10 0/0:12:12:440:0:0:0,-3.61236,-10 0/0:18:18:610:0:0:0,-5.41854,-10 1 17614 . G A 234.0 . AB=0.185567;ABP=86.3098;AC=4;AF=0.117647;AN=34;AO=20;CIGAR=1X;TYPE=snp;mapq=35.75;coverage=8;xdp2=0,8 GT:DP:RO:QR:AO:QA:GL 0/0:33:33:1181:0:0:0,-9.93399,-10 0/0:16:16:580:0:0:0,-4.81648,-10 0/0:23:23:811:0:0:0,-6.92369,-10 1 17626 . G A 70.2 . AB=0.15625;ABP=68.6973;AC=3;AF=0.0882353;AN=34;AO=18;CIGAR=1X;TYPE=snp;mapq=35.1429;coverage=7;xdp2=0,7 GT:DP:RO:QR:AO:QA:GL 0/0:38:38:1359:0:0:0,-10,-10 0/0:20:20:716:0:0:0,-6.0206,-10 0/0:25:25:914:0:0:0,-7.52575,-10 1 17697 . G C 195.1 . AB=0.164835;ABP=91.802;AC=2;AF=0.0588235;AN=34;AO=15;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:65:65:2215:0:0:0,-10,-10 0/1:46:40:1387:6:236:-10,0,-10 0/0:57:57:1918:0:0:0,-10,-10 1 17722 . A G 899.0 . AB=0.171429;ABP=265.572;AC=5;AF=0.147059;AN=34;AO=58;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:66:64:2340:2:80:0,-8.93655,-10 0/0:45:45:1703:0:0:0,-10,-10 0/0:63:63:2319:0:0:0,-10,-10 1 17730 . C A 575.3 . AB=0.166038;ABP=259.728;AC=5;AF=0.147059;AN=34;AO=53;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:68:65:2332:2:48:0,-10,-10 0/0:45:45:1693:0:0:0,-10,-10 0/0:62:62:2277:0:0:0,-10,-10 1 17746 . A G 3136.5 . AB=0.232172;ABP=378.711;AC=13;AF=0.382353;AN=34;AO=144;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:57:36:1275:21:779:-10,0,-10 0/1:39:32:1187:7:260:-10,0,-10 0/1:55:49:1802:6:224:-10,0,-10 1 17765 . G A 156.7 . AB=0.222222;ABP=33.1696;AC=1;AF=0.0294118;AN=34;AO=10;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:45:35:1233:10:329:-10,0,-10 0/0:36:36:1320:0:0:0,-10,-10 0/0:51:51:1811:0:0:0,-10,-10 1 18934 . C T 28.1 . AB=0.368421;ABP=5.8675;AC=5;AF=0.147059;AN=34;AO=9;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:7:5:138:2:65:-5.39001,0,-10 0/0:4:4:152:0:0:0,-1.20412,-10 0/0:5:4:153:1:30:-2.19382,0,-10 1 19004 . A G 1577.9 . AB=0.565217;ABP=5.55942;AC=22;AF=0.6875;AN=32;AO=66;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:8:4:153:4:147:-10,0,-10 0/1:4:1:37:3:111:-9.75794,0,-3.09794 0/1:6:2:80:4:145:-10,0,-6.96991 1 19172 . A G 306.4 . AB=0.298851;ABP=33.5856;AC=10;AF=0.294118;AN=34;AO=31;CIGAR=1X;TYPE=snp;mapq=15;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:9:9:328:0:0:0,-2.70927,-10 0/1:4:3:111:1:31:-2.49794,0,-9.75794 0/0:13:12:431:1:34:-0.600553,0,-10 1 19190 . GC G 2645.0 . AB=0.326923;ABP=97.7199;AC=17;AF=0.5;AN=34;AO=119;CIGAR=1M1D1M;TYPE=del;mapq=8;coverage=3;xdp2=1,2 GT:DP:RO:QR:AO:QA:GL 0/1:31:25:819:6:205:-10,0,-10 0/1:20:12:407:8:266:-10,0,-10 0/1:23:18:644:4:143:-10,0,-10 1 19322 . C T 683.2 . AB=0.386792;ABP=14.81;AC=12;AF=0.352941;AN=34;AO=43;CIGAR=1X;TYPE=snp;mapq=12;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/0:11:11:355:0:0:0,-3.31133,-10 0/1:7:4:111:3:101:-8.86352,0,-9.70436 0/1:20:12:386:8:211:-10,0,-10 1 19355 . G A 273.7 . AB=0.5;ABP=3.0103;AC=8;AF=0.25;AN=32;AO=20;CIGAR=1X;TYPE=snp;mapq=16;coverage=3;xdp2=0,3 GT:DP:RO:QR:AO:QA:GL 0/1:7:2:62:5:137:-10,0,-5.10501 0/1:4:2:71:2:53:-4.60903,0,-6.31903 0/1:6:4:131:2:61:-5.16491,0,-10 1 19391 . G A 415.6 . AB=0.308642;ABP=28.7731;AC=8;AF=0.235294;AN=34;AO=29;CIGAR=1X;TYPE=snp;mapq=14.5;coverage=4;xdp2=0,4 GT:DP:RO:QR:AO:QA:GL 0/1:13:8:222:5:126:-10,0,-10 0/1:12:8:243:4:114:-9.62725,0,-10 0/1:13:9:272:4:124:-10,0,-10 1 19425 . A G 895.3 . AB=0.290456;ABP=94.924;AC=17;AF=0.5;AN=34;AO=70;CIGAR=1X;TYPE=snp;mapq=18;coverage=3;xdp2=0,3 GT:DP:RO:QR:AO:QA:GL 0/1:21:18:514:3:112:-7.25556,0,-10 0/1:13:8:298:5:172:-10,0,-10 0/1:29:23:763:4:57:-1.2948,0,-10 1 19432 . A G 1157.1 . AB=0.298387;ABP=90.5697;AC=17;AF=0.5;AN=34;AO=74;CIGAR=1X;TYPE=snp;mapq=18;coverage=3;xdp2=0,3 GT:DP:RO:QR:AO:QA:GL 0/1:23:20:611:3:111:-6.68453,0,-10 0/1:14:10:359:4:145:-10,0,-10 0/1:29:24:843:5:113:-6.74078,0,-10 1 19858 . C T 5330.3 . AB=0.321221;ABP=194.011;AC=17;AF=0.5;AN=34;AO=221;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:71:55:1892:16:563:-10,0,-10 0/1:38:20:709:18:676:-10,0,-10 0/1:58:40:1442:18:656:-10,0,-10 1 19865 . G T 1467.7 . AB=0.221184;ABP=219.758;AC=7;AF=0.205882;AN=34;AO=96;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:83:75:2673:8:277:-10,0,-10 0/1:45:37:1345:8:307:-10,0,-10 0/0:66:60:2142:6:213:-7.61539,0,-10 1 19952 . G T 783.4 . AB=0.138462;ABP=519.587;AC=5;AF=0.147059;AN=34;AO=124;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:149:131:4603:18:645:-10,0,-10 0/0:94:89:3193:5:181:0,-3.90532,-10 0/1:91:71:2474:20:685:-10,0,-10 1 28247 . G A 97.4 . AB=0.75;ABP=5.18177;AC=7;AF=0.35;AN=20;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/0:1:1:40:0:0:0,-0.30103,-4 0/0:2:2:78:0:0:0,-0.60206,-7.41 1 28253 . G C 83.6 . AB=0.777778;ABP=9.04217;AC=5;AF=0.227273;AN=22;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/0:1:1:40:0:0:0,-0.30103,-4 0/1:2:0:0:2:81:-7.695,-0.60206,0 1 28326 . GT G 499.7 . AB=0.410714;ABP=6.88793;AC=15;AF=0.441176;AN=34;AO=28;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:5:2:80:3:110:-9.76152,0,-7.09485 0/0:3:3:116:0:0:0,-0.90309,-10 0/1:6:1:38:5:166:-10,0,-2.77197 1 28343 . G C 416.5 . AB=0.338983;ABP=16.2968;AC=14;AF=0.411765;AN=34;AO=24;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:6:3:119:3:118:-10,0,-10 0/0:3:3:114:0:0:0,-0.90309,-10 0/1:4:1:35:3:110:-9.66461,0,-2.89794 1 28354 . C T 367.0 . AB=0.316667;ABP=20.5268;AC=14;AF=0.411765;AN=34;AO=23;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:6:3:116:3:116:-10,0,-10 0/0:3:3:86:0:0:0,-0.90309,-8.02667 0/1:5:2:64:3:90:-7.89485,0,-5.57485 1 28367 . G A 44.3 . AB=0.25;ABP=22.5536;AC=7;AF=0.21875;AN=32;AO=9;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:5:5:190:0:0:0,-1.50515,-10 0/0:4:4:130:0:0:0,-1.20412,-10 0/0:4:4:131:0:0:0,-1.20412,-10 1 28376 . G A 1645.1 . AB=0.571429;ABP=3.63072;AC=28;AF=0.875;AN=32;AO=60;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:4:1:41:3:113:-9.94461,0,-3.49794 0/1:4:2:43:2:71:-6.31903,0,-3.65903 0/1:2:1:41:1:31:-2.79897,0,-3.79897 1 28420 . A T 801.8 . AB=0.714286;ABP=5.80219;AC=17;AF=0.772727;AN=22;AO=33;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:2:2:72:0:0:0,-0.60206,-6.84 0/1:1:1:21:0:0:0,-0.30103,-2.1 0/1:1:1:35:0:0:0,-0.30103,-3.5 1 28494 . T C 518.0 . AB=0.483871;ABP=3.08035;AC=16;AF=0.533333;AN=30;AO=25;CIGAR=1X;TYPE=snp;mapq=13.6667;coverage=6;xdp2=6,0 GT:DP:RO:QR:AO:QA:GL 0/1:4:1:36:3:97:-8.45127,0,-2.99794 0/0:1:1:40:0:0:0,-0.30103,-4 1/1:4:0:0:4:137:-10,-1.20412,0 1 28501 . T C 213.1 . AB=0.341463;ABP=11.961;AC=8;AF=0.235294;AN=34;AO=14;CIGAR=1X;TYPE=snp;mapq=13.6667;coverage=6;xdp2=6,0 GT:DP:RO:QR:AO:QA:GL 0/0:5:5:164:0:0:0,-1.50515,-10 0/0:2:2:78:0:0:0,-0.60206,-7.41 0/0:6:6:210:0:0:0,-1.80618,-10 1 28511 . G A 1185.0 . AB=0.528571;ABP=3.50664;AC=22;AF=0.647059;AN=34;AO=55;CIGAR=1X;TYPE=snp;mapq=13.6667;coverage=6;xdp2=6,0 GT:DP:RO:QR:AO:QA:GL 0/1:6:1:35:5:126:-10,0,-2.47197 0/1:2:1:41:1:41:-3.79897,0,-3.79897 1/1:6:0:0:6:208:-10,-1.80618,0 1 28558 . C T 1216.4 . AB=0.261905;ABP=85.7331;AC=19;AF=0.558824;AN=34;AO=56;CIGAR=1X;TYPE=snp;mapq=12;coverage=6;xdp2=2,4 GT:DP:RO:QR:AO:QA:GL 0/1:6:2:14:4:142:-10,0,-0.699911 0/1:6:5:157:1:40:-2.97197,0,-10 1/1:6:0:0:6:228:-10,-1.80618,0 1 28563 . A G 5576.5 . AB=0;ABP=0;AC=34;AF=1;AN=34;AO=184;CIGAR=1X;TYPE=snp;mapq=12;coverage=6;xdp2=2,4 GT:DP:RO:QR:AO:QA:GL 1/1:6:1:7:5:150:-10,-0.328029,0 1/1:7:1:10:6:220:-10,-0.262112,0 1/1:6:0:0:6:234:-10,-1.80618,0 1 28590 . T TTGG 219.5 . AB=0.269231;ABP=27.0635;AC=3;AF=0.0882353;AN=34;AO=16;CIGAR=1M3I1M;TYPE=ins;mapq=13.6667;coverage=6;xdp2=0,6 GT:DP:RO:QR:AO:QA:GL 0/0:7:7:247:0:0:0,-2.10721,-10 0/1:14:5:167:9:285:-10,0,-10 0/0:8:8:277:0:0:0,-2.40824,-10 1 28628 . C T 52.5 . AB=0.327273;ABP=17.2631;AC=4;AF=0.142857;AN=28;AO=34;CIGAR=1X;TYPE=snp;mapq=14.6667;coverage=3;xdp2=0,3 GT:DP:RO:QR:AO:QA:GL 0/0:4:4:152:0:0:0,-1.20412,-10 0/0:12:11:332:1:7:0,-1.83318,-10 0/1:2:1:30:1:23:-1.99897,0,-2.69897 1 28663 . T A 779.4 . AB=0.642857;ABP=5.49198;AC=21;AF=0.807692;AN=26;AO=45;CIGAR=1X;TYPE=snp;mapq=16;coverage=2;xdp2=0,2 GT:DP:RO:QR:AO:QA:GL 0/1:1:1:39:0:0:0,-0.30103,-3.9 0/1:4:1:34:3:99:-8.63794,0,-2.79794 0/1:1:1:38:0:0:0,-0.30103,-3.8 1 28692 . CG AC 259.4 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=10;CIGAR=2X;TYPE=mnp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. .:.:.:.:.:.:. 1 28815 . G A 6.3 . AB=1;ABP=7.35324;AC=1;AF=0.0416667;AN=24;AO=3;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/1:2:0:0:2:69:-6.555,-0.60206,0 0/0:2:2:66:0:0:0,-0.60206,-6.27 1 28835 . A G 851.4 . AB=0.8;ABP=6.91895;AC=17;AF=0.772727;AN=22;AO=35;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:1:1:35:0:0:0,-0.30103,-3.5 1 28875 . G A 27.4 . AB=1;ABP=11.6962;AC=2;AF=0.0666667;AN=30;AO=5;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/1:3:0:0:3:105:-9.8,-0.90309,0 0/0:2:2:69:0:0:0,-0.60206,-6.555 1 28905 . C A 192.0 . AB=0.5;ABP=3.0103;AC=6;AF=0.1875;AN=32;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/0:4:4:131:0:0:0,-1.20412,-10 0/0:3:3:100:0:0:0,-0.90309,-9.33333 1 28959 . A C 173.7 . AB=0.34375;ABP=9.79615;AC=6;AF=0.1875;AN=32;AO=13;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:5:5:183:0:0:0,-1.50515,-10 0/1:8:4:153:4:145:-10,0,-10 0/0:6:6:171:0:0:0,-1.80618,-10 1 29443 . A G 126.2 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=8;CIGAR=1X;TYPE=snp;mapq=18;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. .:.:.:.:.:.:. 1 29571 . G C 163.7 . AB=0.268293;ABP=22.1298;AC=5;AF=0.147059;AN=34;AO=14;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:11:9:284:2:72:-5.26903,0,-10 0/0:15:15:441:0:0:0,-4.51545,-10 0/0:9:9:303:0:0:0,-2.70927,-10 1 30528 . C T 98.0 . AB=0.321429;ABP=10.7656;AC=8;AF=0.235294;AN=34;AO=10;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:2:1:41:1:41:-3.79897,0,-3.79897 0/0:2:2:78:0:0:0,-0.60206,-7.41 0/1:5:3:103:2:68:-5.95485,0,-9.10818 1 30548 . T G 489.0 . AB=0.539683;ABP=3.872;AC=18;AF=0.529412;AN=34;AO=45;CIGAR=1X3M;TYPE=snp;AC_AFR=0;AC_AMR=0;AC_EAS=0 GT:DP:RO:QR:AO:QA:GL 0/1:3:1:40:2:51:-4.41903,0,-3.57403 0/1:3:1:40:2:34:-2.80403,0,-3.57403 0/1:9:5:186:2:51:-3.75251,0,-10 1 30779 . T C 6.8 . AB=0.4;ABP=3.44459;AC=1;AF=0.0294118;AN=34;AO=2;CIGAR=1X;TYPE=snp;mapq=16.6667;coverage=3;xdp2=3,0 GT:DP:RO:QR:AO:QA:GL 0/0:1:1:35:0:0:0,-0.30103,-3.5 0/1:5:3:113:2:73:-6.42985,0,-10 0/0:3:3:112:0:0:0,-0.90309,-10 1 30860 . G C 1261.2 . AB=0.178733;ABP=399.26;AC=10;AF=0.294118;AN=34;AO=104;CIGAR=1X;TYPE=snp;mapq=14;coverage=4;xdp2=1,3 GT:DP:RO:QR:AO:QA:GL 0/0:36:32:1047:4:94:-2.62807,0,-10 0/0:28:26:826:2:49:0,-1.19635,-10 0/1:51:41:1342:10:328:-10,0,-10 1 30923 . G T 9831.3 . AB=0;ABP=0;AC=34;AF=1;AN=34;AO=341;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:21:0:0:20:699:-10,-6.0206,0 1/1:10:0:0:10:356:-10,-3.0103,0 1/1:23:0:0:23:836:-10,-6.92369,0 1 31029 . G A 1422.4 . AB=0.469565;ABP=3.93554;AC=20;AF=0.588235;AN=34;AO=66;CIGAR=1X;TYPE=snp;mapq=5;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:11:9:319:2:68:-4.88903,0,-10 0/1:7:6:232:1:39:-2.63789,0,-10 0/1:15:7:259:8:274:-10,0,-10 1 31166 . C T 108.4 . AB=0.22449;ABP=35.3165;AC=6;AF=0.176471;AN=34;AO=16;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:7:7:262:0:0:0,-2.10721,-10 0/1:6:5:189:1:41:-3.07197,0,-10 0/0:9:8:313:1:39:-2.14497,0,-10 1 33430 . A T 1.3 . AB=0;ABP=0;AC=2;AF=1;AN=2;AO=2;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. .:.:.:.:.:.:. 1 39015 . A C 1688.4 . AB=0.367568;ABP=31.1925;AC=13;AF=0.382353;AN=34;AO=70;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:21:18:650:3:114:-7.44222,0,-10 0/1:21:9:281:12:468:-10,0,-10 0/1:14:10:341:4:130:-10,0,-10 1 39185 . T C 33.6 . AB=0.179487;ABP=37.8095;AC=2;AF=0.0588235;AN=34;AO=25;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:30:29:1036:1:37:0,-3.85378,-10 0/1:16:12:435:4:136:-10,0,-10 0/0:29:29:961:0:0:0,-8.72987,-10 1 39230 . G A 5254.8 . AB=0.336554;ABP=147.107;AC=15;AF=0.441176;AN=34;AO=210;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:58:38:1374:20:682:-10,0,-10 0/0:45:44:1552:1:37:0,-8.19314,-10 0/1:46:24:835:22:661:-10,0,-10 1 39247 . A G 2079.6 . AB=0.209677;ABP=320.746;AC=10;AF=0.294118;AN=34;AO=98;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:52:44:1616:8:296:-10,0,-10 0/1:43:32:1195:11:355:-10,0,-10 0/1:41:30:1061:11:396:-10,0,-10 1 39255 . A C 5317.3 . AB=0.355422;ABP=93.4273;AC=13;AF=0.382353;AN=34;AO=178;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:49:33:1284:16:598:-10,0,-10 0/1:44:32:1225:12:409:-10,0,-10 0/0:41:41:1461:0:0:0,-10,-10 1 39256 . A G 1801.7 . AB=0.175097;ABP=474.296;AC=14;AF=0.411765;AN=34;AO=100;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:48:41:1500:7:271:-10,0,-10 0/1:44:38:1364:6:227:-10,0,-10 0/0:43:38:1321:5:164:-8.12716,0,-10 1 39261 . T C 12137.2 . AB=0.670157;ABP=147.112;AC=18;AF=0.529412;AN=34;AO=424;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:46:12:438:34:1166:-10,0,-10 0/1:43:22:756:21:704:-10,0,-10 0/1:42:25:907:17:584:-10,0,-10 1 39406 . G C 698.1 . AB=0.235669;ABP=98.2923;AC=9;AF=0.264706;AN=34;AO=47;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:28:26:977:2:74:-1.17865,0,-10 0/1:8:4:143:4:154:-10,0,-10 0/0:16:15:558:1:40:-0.38764,0,-10 1 39423 . T C 67.6 . AB=0.21875;ABP=24.9965;AC=2;AF=0.0588235;AN=34;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:39:39:1463:0:0:0,-10,-10 0/0:13:13:477:0:0:0,-3.91339,-10 0/0:21:21:763:0:0:0,-6.32163,-10 1 40639 . CTTT C 650.3 . AB=0.626556;ABP=36.5375;AC=23;AF=0.676471;AN=34;AO=229;CIGAR=1M3D17M;TYPE=del;mapq=6.5;coverage=4;xdp2=2,2 GT:DP:RO:QR:AO:QA:GL 1/1:8:0:0:6:36:-3.16125,-1.80618,0 0/1:15:5:184:7:49:-3.6987,0,-10 0/1:17:4:126:12:82:-5.84051,0,-9.99559 1 40894 . G AA 2480.0 . AB=0.67;ABP=28.1125;AC=21;AF=0.617647;AN=34;AO=91;CIGAR=1M1I1X;TYPE=complex GT:DP:RO:QR:AO:QA:GL 0/1:2:2:54:0:0:0,-0.60206,-5.13 0/1:6:3:115:3:112:-9.94818,0,-10 0/1:7:2:68:5:183:-10,0,-5.67501 1 46320 . A G 27.2 . AB=0.666667;ABP=3.73412;AC=1;AF=0.125;AN=8;AO=2;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:3:1:39:2:82:-7.36403,0,-3.47403 .:.:.:.:.:.:. 0/0:1:1:38:0:0:0,-0.30103,-3.8 1 47267 . T G 645.8 . AB=0.305882;ABP=30.8307;AC=1;AF=0.0357143;AN=28;AO=26;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:85:59:2191:26:889:-10,0,-10 .:.:.:.:.:.:. 0/0:33:33:1170:0:0:0,-9.93399,-10 1 47960 . T A 2823.7 . AB=0.482143;ABP=3.47562;AC=16;AF=0.470588;AN=34;AO=99;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:21:21:767:0:0:0,-6.32163,-10 1/1:3:0:0:3:112:-10,-0.90309,0 0/1:19:11:420:8:314:-10,0,-10 1 48127 . T C 332.8 . AB=0.28;ABP=24.0302;AC=1;AF=0.0294118;AN=34;AO=14;CIGAR=1X;TYPE=snp;mapq=25;coverage=6;xdp2=3,3 GT:DP:RO:QR:AO:QA:GL 0/1:50:36:1360:14:508:-10,0,-10 0/0:10:10:364:0:0:0,-3.0103,-10 0/0:33:33:1242:0:0:0,-9.93399,-10 1 48448 . C T 1564.1 . AB=0.506329;ABP=3.03779;AC=15;AF=0.441176;AN=34;AO=58;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:21:21:752:0:0:0,-6.32163,-10 0/1:8:1:38:7:258:-10,0,-2.29485 0/0:7:7:239:0:0:0,-2.10721,-10 1 49243 . G A 116.6 . AB=1;ABP=33.4109;AC=5;AF=0.178571;AN=28;AO=24;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:61:61:2236:0:0:0,-10,-10 0/1:2:0:0:2:68:-6.46,-0.60206,0 0/0:23:21:794:2:70:-2.12943,0,-10 1 49291 . C T 131.4 . AB=0.354839;ABP=8.68415;AC=3;AF=0.09375;AN=32;AO=18;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:57:57:2053:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:22:22:799:0:0:0,-6.62266,-10 1 49298 . T C 6036.0 . AB=0.75;ABP=18.2106;AC=24;AF=0.75;AN=32;AO=203;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:54:2:72:52:1850:-10,-6.25998,0 .:.:.:.:.:.:. 1/1:22:2:73:20:743:-10,0,-2.67595 1 49404 . C A 559.5 . AB=0.313131;ABP=33.038;AC=7;AF=0.205882;AN=34;AO=31;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:33:33:1195:0:0:0,-9.93399,-10 0/1:4:0:0:4:106:-9.805,-1.20412,0 0/1:14:11:397:3:115:-9.08001,0,-10 1 49427 . C T 225.6 . AB=0.212121;ABP=74.2741;AC=7;AF=0.205882;AN=34;AO=24;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:38:37:1283:1:35:0,-6.35936,-10 0/1:5:3:87:2:69:-6.04985,0,-7.61485 0/1:13:11:404:2:60:-3.6787,0,-10 1 49448 . A G 1074.9 . AB=0.284211;ABP=79.8576;AC=11;AF=0.323529;AN=34;AO=57;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:52:52:1775:0:0:0,-10,-10 0/1:8:2:69:6:183:-10,0,-5.59392 0/0:15:14:509:1:36:-0.260641,0,-10 1 49514 . AG A 278.8 . AB=0.15873;ABP=66.7413;AC=2;AF=0.0625;AN=32;AO=19;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:87:87:3244:0:0:0,-10,-10 0/1:4:0:0:3:121:-10,-0.90309,0 0/0:25:23:856:1:35:0,-2.64451,-10 1 49515 . G GA 278.8 . AB=0.294118;ABP=28.0461;AC=6;AF=0.1875;AN=32;AO=20;CIGAR=2M1I1M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/0:87:87:3244:0:0:0,-10,-10 0/.:4:0:0:0:0:-10,-10,-10 0/0:25:23:856:0:0:0,-6.92369,-10 1 49554 . A G 465.0 . AB=0.3;ABP=23.8564;AC=2;AF=0.0666667;AN=30;AO=18;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:60:42:1605:18:665:-10,0,-10 .:.:.:.:.:.:. 0/0:14:14:518:0:0:0,-4.21442,-10 1 50299 . CA C 797.8 . AB=0.280822;ABP=63.9305;AC=13;AF=0.382353;AN=34;AO=41;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:17:14:522:3:115:-8.44833,0,-10 0/1:7:5:192:2:77:-6.53001,0,-10 0/1:9:7:236:2:73:-5.78203,0,-10 1 51476 . T C 17.4 . AB=0.625;ABP=4.09604;AC=2;AF=0.0714286;AN=28;AO=11;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:80:80:2829:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:29:28:945:0:0:0,-8.42884,-10 1 51479 . T A 583.4 . AB=0;ABP=0;AC=2;AF=0.0666667;AN=30;AO=22;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:79:79:2959:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:29:29:1028:0:0:0,-8.72987,-10 1 51587 . C T 13.0 . AB=0.3;ABP=9.95901;AC=3;AF=0.0882353;AN=34;AO=8;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:40:40:1410:0:0:0,-10,-10 0/0:2:2:64:0:0:0,-0.60206,-6.08 0/0:16:16:529:0:0:0,-4.81648,-10 1 51668 . C A 480.4 . AB=0.452055;ABP=4.46786;AC=7;AF=0.205882;AN=34;AO=35;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:78:78:2448:0:0:0,-10,-10 0/0:9:9:323:0:0:0,-2.70927,-10 0/0:47:47:1571:0:0:0,-10,-10 1 51673 . T C 525.9 . AB=0.45;ABP=4.74748;AC=8;AF=0.235294;AN=34;AO=39;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:78:76:2335:2:13:0,-10,-10 0/0:9:9:325:0:0:0,-2.70927,-10 0/0:48:48:1533:0:0:0,-10,-10 1 51803 . T C 2171.2 . AB=0.651852;ABP=30.0492;AC=10;AF=0.294118;AN=34;AO=89;CIGAR=1X;TYPE=snp;mapq=25;coverage=1;xdp2=1,0 GT:DP:RO:QR:AO:QA:GL 0/1:40:12:365:26:848:-10,0,-10 0/1:1:1:39:0:0:0,-0.30103,-3.9 0/1:10:2:68:8:228:-10,0,-5.10291 1 51898 . C A 912.0 . AB=0.234818;ABP=153.879;AC=10;AF=0.294118;AN=34;AO=64;CIGAR=1X;TYPE=snp;mapq=25;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:90:90:3105:0:0:0,-10,-10 0/1:5:0:0:5:156:-10,-1.50515,0 0/0:35:32:1060:3:60:0,-1.12014,-10 1 51928 . G A 2893.1 . AB=0.288557;ABP=159.119;AC=13;AF=0.382353;AN=34;AO=117;CIGAR=1X;TYPE=snp;mapq=25;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:98:97:3437:1:19:0,-10,-10 0/1:8:0:0:8:268:-10,-2.40824,0 0/1:40:33:1190:7:207:-10,0,-10 1 52058 . G C 1329.4 . AB=0.369128;ABP=25.1768;AC=16;AF=0.470588;AN=34;AO=83;CIGAR=1X;TYPE=snp;mapq=32.5;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/0:72:72:2488:0:0:0,-10,-10 0/1:3:0:0:3:101:-9.42667,-0.90309,0 0/0:24:22:747:2:82:-3.00619,0,-10 1 52091 . A C 75.4 . AB=0.319149;ABP=69.7715;AC=7;AF=0.205882;AN=34;AO=121;CIGAR=1X;TYPE=snp;mapq=24;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/1:67:48:1443:17:138:-8.13888,0,-10 0/0:7:6:225:1:6:0,-0.662112,-10 0/0:31:23:629:7:54:-2.15284,0,-10 1 52093 . TCCA CCCC 162.9 . AB=0.170543;ABP=246.249;AC=2;AF=0.0588235;AN=34;AO=67;CIGAR=1X2M1X;TYPE=complex;mapq=20;coverage=4;xdp2=2,2 GT:DP:RO:QR:AO:QA:GL 0/.:69:42:1496:8:63:-10,-10,-10 0/0:8:8:285:0:0:0,-2.40824,-10 0/.:31:16:571:6:74:-8.13985,-3.22658,-10 1 52096 . A C 162.9 . AB=0.236434;ABP=158.683;AC=5;AF=0.147059;AN=34;AO=83;CIGAR=3M1X;TYPE=snp;mapq=20;coverage=4;xdp2=2,2 GT:DP:RO:QR:AO:QA:GL 0/1:69:42:1496:18:175:-10,0,-10 0/0:8:8:285:0:0:0,-2.40824,-10 0/1:31:16:571:9:104:-8.13985,0,-10 1 52238 . T G 11802.2 . AB=0;ABP=0;AC=32;AF=1;AN=32;AO=365;CIGAR=1X;TYPE=snp;mapq=27;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 1/1:48:0:0:48:1840:-10,-10,0 1/1:13:0:0:13:491:-10,-3.91339,0 1/1:35:0:0:35:1313:-10,-10,0 1 53920 . G C 183.6 . AB=0.285714;ABP=14.1779;AC=1;AF=0.0294118;AN=34;AO=8;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:28:20:748:8:316:-10,0,-10 0/0:2:2:70:0:0:0,-0.60206,-6.65 0/0:17:17:633:0:0:0,-5.11751,-10 1 54001 . A G 780.9 . AB=0.294872;ABP=60.0254;AC=10;AF=0.3125;AN=32;AO=48;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:49:49:1856:0:0:0,-10,-10 0/1:5:0:0:5:189:-10,-1.50515,0 0/1:20:16:610:4:153:-10,0,-10 1 54366 . A G 78.1 . AB=1;ABP=18.2106;AC=2;AF=0.0588235;AN=34;AO=25;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:98:98:3615:0:0:0,-10,-10 0/0:1:0:0:1:41:-4.1,-0.30103,0 0/0:28:26:966:2:73:-1.08365,0,-10 1 54380 . T C 79.9 . AB=1;ABP=18.2106;AC=2;AF=0.0588235;AN=34;AO=17;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:106:106:3952:0:0:0,-10,-10 0/1:2:0:0:2:82:-7.79,-0.60206,0 0/0:24:23:863:1:31:0,-2.74451,-10 1 54490 . G A 686.7 . AB=0.5;ABP=3.0103;AC=1;AF=0.0294118;AN=34;AO=23;CIGAR=1X;TYPE=snp;mapq=7;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:88:88:3211:0:0:0,-10,-10 0/0:17:17:659:0:0:0,-5.11751,-10 0/0:46:46:1731:0:0:0,-10,-10 1 54586 . T C 1657.2 . AB=0.269504;ABP=133.145;AC=11;AF=0.323529;AN=34;AO=82;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:87:87:3136:0:0:0,-10,-10 0/1:6:0:0:6:217:-10,-1.80618,0 0/1:29:24:876:5:186:-10,0,-10 1 54676 . C T 3057.6 . AB=0.373802;ABP=46.3079;AC=11;AF=0.323529;AN=34;AO=123;CIGAR=1X;TYPE=snp;mapq=33.5;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/0:89:89:3000:0:0:0,-10,-10 0/1:5:0:0:5:183:-10,-1.50515,0 0/1:37:25:902:12:445:-10,0,-10 1 54708 . GTATTTTTC CTATTTTTTT 3037.9 . AB=0.340517;ABP=54.2645;AC=7;AF=0.205882;AN=34;AO=79;CIGAR=1X2M1I5M1X;TYPE=complex;mapq=49;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/0:65:62:2240:0:0:0,-10,-10 0/.:8:0:0:0:0:-10,-10,-10 0/.:38:23:851:0:0:-10,-10,-10 1 54708 . GTATTTTTC CTATTTTTT 3037.9 . AB=0.321138;ABP=71.3675;AC=6;AF=0.176471;AN=34;AO=79;CIGAR=1X7M1X;TYPE=complex;mapq=49;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/0:65:62:2240:0:0:0,-10,-10 0/1:8:0:0:8:196:-10,-2.40824,0 0/1:38:23:851:14:479:-10,0,-10 1 54720 . CT C 745.3 . AB=0.553191;ABP=4.16534;AC=1;AF=0.0294118;AN=34;AO=26;CIGAR=1M1D1M;TYPE=del;mapq=49;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/0:80:78:2824:0:0:0,-10,-10 0/0:12:12:446:0:0:0,-3.61236,-10 0/0:48:48:1769:0:0:0,-10,-10 1 54724 . C CTT 583.3 . AB=0.15869;ABP=404.711;AC=9;AF=0.264706;AN=34;AO=71;CIGAR=1M2I3M;TYPE=ins;mapq=49;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/0:79:78:2836:0:0:0,-10,-10 0/0:14:9:344:3:102:-7.91006,0,-10 0/1:51:40:1473:8:288:-10,0,-10 1 54760 . C CTT 121.0 . AB=0.152;ABP=134.497;AC=3;AF=0.0882353;AN=34;AO=34;CIGAR=1M2I3M;TYPE=ins;mapq=39.75;coverage=4;xdp2=2,2 GT:DP:RO:QR:AO:QA:GL 0/0:66:66:2384:0:0:0,-10,-10 0/1:19:14:521:5:126:-9.93794,0,-10 0/1:54:46:1699:7:223:-10,0,-10 1 54844 . G A 3279.5 . AB=0.381323;ABP=34.4502;AC=15;AF=0.441176;AN=34;AO=115;CIGAR=1X;TYPE=snp;mapq=24;coverage=4;xdp2=2,2 GT:DP:RO:QR:AO:QA:GL 0/0:64:64:2268:0:0:0,-10,-10 0/1:2:0:0:2:73:-6.935,-0.60206,0 0/1:17:10:379:7:220:-10,0,-10 1 54933 . C G 251.6 . AB=0.3125;ABP=12.7819;AC=1;AF=0.0294118;AN=34;AO=10;CIGAR=1X;TYPE=snp;mapq=22;coverage=2;xdp2=0,2 GT:DP:RO:QR:AO:QA:GL 0/1:32:22:796:10:377:-10,0,-10 0/0:11:11:425:0:0:0,-3.31133,-10 0/0:22:22:827:0:0:0,-6.62266,-10 1 55085 . T A 3143.9 . AB=0.289809;ABP=123.506;AC=15;AF=0.441176;AN=34;AO=115;CIGAR=1X;TYPE=snp;mapq=22.6;coverage=5;xdp2=3,2 GT:DP:RO:QR:AO:QA:GL 0/0:70:70:2691:0:0:0,-10,-10 1/1:12:0:0:12:471:-10,-3.61236,0 0/1:24:20:779:4:140:-9.75165,0,-10 1 55164 . C A 8121.5 . AB=0;ABP=0;AC=32;AF=1;AN=32;AO=251;CIGAR=1X;TYPE=snp;mapq=23;coverage=3;xdp2=0,3 GT:DP:RO:QR:AO:QA:GL 1/1:44:0:0:44:1661:-10,-10,0 .:.:.:.:.:.:. 1/1:13:0:0:13:495:-10,-3.91339,0 1 55299 . C T 8698.7 . AB=0.385057;ABP=22.9779;AC=16;AF=0.571429;AN=28;AO=273;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:102:72:2565:30:1111:-10,0,-10 .:.:.:.:.:.:. 0/0:28:28:1058:0:0:0,-8.42884,-10 1 55326 . T C 7649.7 . AB=0.538462;ABP=3.84548;AC=15;AF=0.535714;AN=28;AO=237;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:106:106:3890:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:33:33:1254:0:0:0,-9.93399,-10 1 55545 . C T 4360.5 . AB=0.283951;ABP=68.6906;AC=15;AF=0.535714;AN=28;AO=149;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:94:77:2848:17:590:-10,0,-10 .:.:.:.:.:.:. 0/0:21:21:751:0:0:0,-6.32163,-10 1 55926 . T C 3730.9 . AB=0;ABP=0;AC=28;AF=1;AN=28;AO=121;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:21:0:0:21:737:-10,-6.32163,0 .:.:.:.:.:.:. 1/1:3:0:0:3:106:-9.89333,-0.90309,0 1 56799 . T C 633.8 . AB=0.204545;ABP=169.819;AC=10;AF=0.294118;AN=34;AO=53;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:81:81:3014:0:0:0,-10,-10 0/1:2:0:0:2:81:-7.695,-0.60206,0 0/1:27:23:811:4:151:-10,0,-10 1 57033 . T C 111.4 . AB=0.275862;ABP=15.6647;AC=1;AF=0.0294118;AN=34;AO=27;CIGAR=1X;TYPE=snp;mapq=29.7143;coverage=7;xdp2=2,5 GT:DP:RO:QR:AO:QA:GL 0/0:89:89:3249:0:0:0,-10,-10 0/0:13:13:451:0:0:0,-3.91339,-10 0/0:57:57:2068:0:0:0,-10,-10 1 57158 . G C 5444.2 . AB=0.747126;ABP=95.3104;AC=11;AF=0.323529;AN=34;AO=175;CIGAR=1X;TYPE=snp;mapq=40;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:68:68:2501:0:0:0,-10,-10 0/1:2:2:80:0:0:0,-0.60206,-7.6 0/0:33:33:1275:0:0:0,-9.93399,-10 1 57246 . C G 1279.9 . AB=0.209091;ABP=245.584;AC=11;AF=0.323529;AN=34;AO=76;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:90:90:3397:0:0:0,-10,-10 0/1:3:0:0:3:121:-10,-0.90309,0 0/0:33:30:1086:3:112:-4.25622,0,-10 1 57292 . C T 6195.9 . AB=0.728261;ABP=86.2815;AC=12;AF=0.375;AN=32;AO=198;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:73:73:2759:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:25:25:967:0:0:0,-7.52575,-10 1 57376 . C T 69.2 . AB=0.158537;ABP=86.0559;AC=4;AF=0.117647;AN=34;AO=23;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:72:72:2529:0:0:0,-10,-10 0/0:2:0:0:2:49:-4.655,-0.60206,0 0/1:27:24:892:3:108:-5.41832,0,-10 1 57856 . T A 5432.2 . AB=0.361979;ABP=66.5485;AC=16;AF=0.470588;AN=34;AO=179;CIGAR=1X;TYPE=snp;mapq=47;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:64:64:2407:0:0:0,-10,-10 1/1:10:0:0:10:378:-10,-3.0103,0 0/1:25:13:496:12:443:-10,0,-10 1 57952 . A C 3032.5 . AB=0;ABP=0;AC=28;AF=1;AN=28;AO=104;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:18:0:0:18:670:-10,-5.41854,0 .:.:.:.:.:.:. 1/1:6:0:0:6:200:-10,-1.80618,0 1 58176 . G A 241.5 . AB=0.4;ABP=5.18177;AC=1;AF=0.0294118;AN=34;AO=10;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:25:15:520:10:374:-10,0,-10 0/0:4:4:137:0:0:0,-1.20412,-10 0/0:15:15:541:0:0:0,-4.51545,-10 1 58193 . G A 124.8 . AB=0.291667;ABP=12.0581;AC=1;AF=0.0294118;AN=34;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:24:17:618:7:227:-10,0,-10 0/0:3:3:97:0:0:0,-0.90309,-9.05333 0/0:14:14:490:0:0:0,-4.21442,-10 1 58211 . A G 4531.5 . AB=0;ABP=0;AC=34;AF=1;AN=34;AO=149;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:24:0:0:24:868:-10,-7.22472,0 1/1:2:0:0:2:59:-5.605,-0.60206,0 1/1:15:0:0:15:524:-10,-4.51545,0 1 58771 . T C 7453.7 . AB=0.474074;ABP=5.37479;AC=16;AF=0.470588;AN=34;AO=243;CIGAR=1X;TYPE=snp;mapq=32.3333;coverage=3;xdp2=3,0 GT:DP:RO:QR:AO:QA:GL 0/0:61:61:2242:0:0:0,-10,-10 1/1:17:0:0:17:618:-10,-5.11751,0 0/1:36:18:633:18:657:-10,0,-10 1 58814 . G A 1239.3 . AB=0.425532;ABP=7.53805;AC=1;AF=0.0294118;AN=34;AO=40;CIGAR=1X;TYPE=snp;mapq=36;coverage=4;xdp2=3,1 GT:DP:RO:QR:AO:QA:GL 0/1:94:54:2026:40:1494:-10,0,-10 0/0:22:22:822:0:0:0,-6.62266,-10 0/0:52:52:1945:0:0:0,-10,-10 1 58866 . C G 2036.2 . AB=0.318966;ABP=69.053;AC=7;AF=0.205882;AN=34;AO=74;CIGAR=1X;TYPE=snp;mapq=36;coverage=2;xdp2=0,2 GT:DP:RO:QR:AO:QA:GL 0/0:67:67:2539:0:0:0,-10,-10 0/1:10:0:0:10:354:-10,-3.0103,0 0/1:33:20:737:13:489:-10,0,-10 1 58989 . C G 1050.0 . AB=0.29771;ABP=49.5726;AC=6;AF=0.176471;AN=34;AO=41;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:67:67:2490:0:0:0,-10,-10 0/1:7:0:0:7:277:-10,-2.10721,0 0/1:30:19:708:11:411:-10,0,-10 1 59051 . A G 88.4 . AB=0.285714;ABP=19.7617;AC=4;AF=0.153846;AN=26;AO=19;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:94:94:3494:0:0:0,-10,-10 .:.:.:.:.:.:. 0/1:34:30:1117:4:136:-7.01127,0,-10 1 59108 . G A 442.5 . AB=0.285714;ABP=25.3454;AC=1;AF=0.0294118;AN=34;AO=16;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:56:40:1528:16:637:-10,0,-10 0/0:2:2:67:0:0:0,-0.60206,-6.365 0/0:24:24:887:0:0:0,-7.22472,-10 1 59121 . G T 380.0 . AB=0.285714;ABP=22.5536;AC=1;AF=0.0294118;AN=34;AO=14;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:49:35:1323:14:550:-10,0,-10 0/0:2:2:73:0:0:0,-0.60206,-6.935 0/0:24:24:895:0:0:0,-7.22472,-10 1 59445 . T TAAAC 88.8 . AB=0.40625;ABP=7.89611;AC=6;AF=0.176471;AN=34;AO=29;CIGAR=1M4I5M;TYPE=ins;mapq=13;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:69:68:2591:0:0:0,-10,-10 0/0:3:3:119:0:0:0,-0.90309,-10 0/0:27:27:1020:0:0:0,-8.12781,-10 1 59498 . T C 103.8 . AB=1;ABP=29.068;AC=5;AF=0.15625;AN=32;AO=17;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:112:112:4078:0:0:0,-10,-10 0/1:2:0:0:2:68:-6.46,-0.60206,0 0/0:38:37:1398:1:24:0,-7.45936,-10 1 60249 . C T 611.4 . AB=0.28;ABP=34.5401;AC=1;AF=0.0294118;AN=34;AO=21;CIGAR=1X;TYPE=snp;mapq=25;coverage=6;xdp2=4,2 GT:DP:RO:QR:AO:QA:GL 0/1:75:54:1952:21:804:-10,0,-10 0/0:12:12:443:0:0:0,-3.61236,-10 0/0:37:37:1294:0:0:0,-10,-10 1 60332 . T C 6010.7 . AB=0.427481;ABP=20.9622;AC=16;AF=0.470588;AN=34;AO=210;CIGAR=1X;TYPE=snp;mapq=25;coverage=3;xdp2=0,3 GT:DP:RO:QR:AO:QA:GL 0/0:65:65:2371:0:0:0,-10,-10 1/1:11:0:0:11:392:-10,-3.31133,0 0/1:35:23:899:12:419:-10,0,-10 1 60791 . A G 80.2 . AB=0.909091;ABP=19.0002;AC=4;AF=0.166667;AN=24;AO=15;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:84:84:3011:0:0:0,-10,-10 0/0:1:0:0:1:34:-3.4,-0.30103,0 0/0:31:31:1130:0:0:0,-9.33193,-10 1 61021 . G A 473.4 . AB=0.478261;ABP=3.19912;AC=7;AF=0.205882;AN=34;AO=23;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:46:46:1720:0:0:0,-10,-10 0/0:4:4:156:0:0:0,-1.20412,-10 0/0:18:18:620:0:0:0,-5.41854,-10 1 61219 . T C 1008.0 . AB=0.274809;ABP=60.7118;AC=13;AF=0.382353;AN=34;AO=47;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:60:59:2194:0:0:0,-10,-10 0/1:2:0:0:2:74:-7.03,-0.60206,0 0/1:17:14:507:3:114:-8.355,0,-10 1 61289 . A AG 885.8 . AB=0.530303;ABP=3.53672;AC=10;AF=0.3125;AN=32;AO=53;CIGAR=1M1I1M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/0:106:106:3931:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:32:29:1050:2:60:0,-1.29114,-10 1 61350 . T TA 1234.1 . AB=0.440909;ABP=9.68264;AC=10;AF=0.294118;AN=34;AO=126;CIGAR=1M1I12M;TYPE=ins;mapq=37;coverage=4;xdp2=4,0 GT:DP:RO:QR:AO:QA:GL 0/.:42:28:1066:0:0:-10,-10,-10 0/0:11:11:400:0:0:0,-3.31133,-10 0/.:24:16:612:0:0:-10,-10,-10 1 61350 . TA T 1234.1 . AB=0.207143;ABP=107.303;AC=3;AF=0.0882353;AN=34;AO=45;CIGAR=1M1D11M;TYPE=del;mapq=37;coverage=4;xdp2=4,0 GT:DP:RO:QR:AO:QA:GL 0/1:42:28:1066:11:186:-10,0,-10 0/0:11:11:400:0:0:0,-3.31133,-10 0/1:24:16:612:8:172:-10,0,-10 1 61442 . A G 9490.6 . AB=0;ABP=0;AC=32;AF=1;AN=32;AO=286;CIGAR=1X;TYPE=snp;mapq=35.5;coverage=4;xdp2=0,4 GT:DP:RO:QR:AO:QA:GL 1/1:53:0:0:53:1995:-10,-10,0 1/1:1:0:0:1:37:-3.7,-0.30103,0 1/1:26:0:0:26:945:-10,-7.82678,0 1 61499 . G A 2247.0 . AB=0.253521;ABP=190.338;AC=12;AF=0.352941;AN=34;AO=93;CIGAR=1X;TYPE=snp;mapq=37;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:94:94:3589:0:0:0,-10,-10 0/1:4:0:0:4:159:-10,-1.20412,0 0/1:50:41:1496:9:346:-10,0,-10 1 61579 . G A 707.3 . AB=0.337838;ABP=19.9126;AC=1;AF=0.0294118;AN=34;AO=26;CIGAR=1X;TYPE=snp;mapq=25;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/1:74:49:1869:25:925:-10,0,-10 0/0:6:6:227:0:0:0,-1.80618,-10 0/0:39:39:1500:0:0:0,-10,-10 1 61851 . T A 1851.7 . AB=0.303502;ABP=89.2017;AC=9;AF=0.264706;AN=34;AO=93;CIGAR=1X;TYPE=snp;mapq=22;coverage=2;xdp2=1,1 GT:DP:RO:QR:AO:QA:GL 0/0:103:103:3688:0:0:0,-10,-10 0/1:5:0:0:5:189:-10,-1.50515,0 0/1:42:33:1215:9:343:-10,0,-10 1 61871 . C CT 2050.2 . AB=0.289189;ABP=145.834;AC=13;AF=0.382353;AN=34;AO=113;CIGAR=1M1I10M;TYPE=ins;mapq=35.5;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/1:76:59:2121:15:461:-10,0,-10 0/1:6:0:0:6:158:-10,-1.80618,0 0/1:38:27:988:10:272:-10,0,-10 1 61987 . AAG GAC 7455.0 . AB=0.43913;ABP=17.8141;AC=16;AF=0.470588;AN=34;AO=247;CIGAR=1X1M1X;TYPE=complex;mapq=54.2;coverage=5;xdp2=3,2 GT:DP:RO:QR:AO:QA:GL 0/0:68:68:2493:0:0:0,-10,-10 1/1:17:0:0:17:602:-10,-5.11751,0 0/1:37:17:583:20:649:-10,0,-10 1 62203 . T C 9054.0 . AB=0.411654;ABP=39.0763;AC=16;AF=0.470588;AN=34;AO=279;CIGAR=1X;TYPE=snp;mapq=26.6;coverage=5;xdp2=1,4 GT:DP:RO:QR:AO:QA:GL 0/0:104:104:3880:0:0:0,-10,-10 1/1:20:0:0:20:751:-10,-6.0206,0 0/1:51:36:1346:15:579:-10,0,-10 1 62239 . TAC T 2646.6 . AB=0.334177;ABP=97.3512;AC=13;AF=0.382353;AN=34;AO=132;CIGAR=1M2D15M;TYPE=del;mapq=27;coverage=2;xdp2=0,2 GT:DP:RO:QR:AO:QA:GL 0/0:82:81:3019:0:0:0,-10,-10 0/1:6:0:0:6:193:-10,-1.80618,0 0/1:46:34:1254:9:254:-10,0,-10 1 62271 . A G 2164.8 . AB=0.266106;ABP=172.647;AC=13;AF=0.382353;AN=34;AO=95;CIGAR=1X;TYPE=snp;mapq=27;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:83:83:3128:0:0:0,-10,-10 0/1:4:0:0:4:148:-10,-1.20412,0 0/1:52:44:1567:8:276:-10,0,-10 1 62578 . G A 177.6 . AB=1;ABP=31.2394;AC=4;AF=0.133333;AN=30;AO=25;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:137:137:5182:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:36:35:1324:1:37:0,-5.58078,-10 1 62777 . A T 4344.6 . AB=0.344828;ABP=69.7269;AC=16;AF=0.470588;AN=34;AO=147;CIGAR=1X;TYPE=snp;mapq=28.1429;coverage=7;xdp2=2,5 GT:DP:RO:QR:AO:QA:GL 0/0:116:116:4181:0:0:0,-10,-10 1/1:12:0:0:12:465:-10,-3.61236,0 0/1:32:25:873:7:239:-10,0,-10 1 63239 . C T 78.9 . AB=1;ABP=20.3821;AC=3;AF=0.115385;AN=26;AO=16;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:70:69:2539:1:34:0,-10,-10 .:.:.:.:.:.:. 0/0:30:30:1134:0:0:0,-9.0309,-10 1 63268 . T C 331.4 . AB=1;ABP=55.1256;AC=7;AF=0.233333;AN=30;AO=39;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:76:70:2639:6:199:-3.70307,0,-10 .:.:.:.:.:.:. 0/0:25:24:904:1:17:0,-4.42781,-10 1 63336 . C T 3933.0 . AB=0.549356;ABP=7.94038;AC=7;AF=0.205882;AN=34;AO=128;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:70:49:1805:21:792:-10,0,-10 0/0:6:6:243:0:0:0,-1.80618,-10 0/1:25:8:314:17:627:-10,0,-10 1 63495 . C T 879.9 . AB=0.481481;ABP=3.25157;AC=8;AF=0.235294;AN=34;AO=39;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:68:68:2525:0:0:0,-10,-10 0/0:3:3:109:0:0:0,-0.90309,-10 0/0:17:17:633:0:0:0,-5.11751,-10 1 63516 . A G 456.0 . AB=0.195266;ABP=139.325;AC=8;AF=0.25;AN=32;AO=40;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:69:63:2296:6:219:-7.38267,0,-10 0/0:1:0:0:1:35:-3.5,-0.30103,0 0/0:18:16:582:2:63:-2.75115,0,-10 1 63527 . T C 636.3 . AB=0.435294;ABP=6.10145;AC=10;AF=0.333333;AN=30;AO=46;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:63:58:2091:5:176:-4.07399,0,-10 .:.:.:.:.:.:. 0/0:14:13:475:1:35:-0.431708,0,-10 1 63671 . G A 439.4 . AB=0.204545;ABP=69.7337;AC=1;AF=0.0294118;AN=34;AO=18;CIGAR=1X;TYPE=snp;mapq=12.25;coverage=4;xdp2=0,4 GT:DP:RO:QR:AO:QA:GL 0/1:88:69:2494:18:673:-10,0,-10 0/0:23:23:859:0:0:0,-6.92369,-10 0/0:43:43:1556:0:0:0,-10,-10 1 63697 . T C 3900.2 . AB=0.397727;ABP=26.9952;AC=11;AF=0.323529;AN=34;AO=132;CIGAR=1X;TYPE=snp;mapq=25;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:64:56:2024:8:295:-10,0,-10 0/0:17:17:620:0:0:0,-5.11751,-10 0/0:42:42:1551:0:0:0,-10,-10 1 63735 . CCTA C 2709.8 . AB=0.603448;ABP=19.184;AC=11;AF=0.323529;AN=34;AO=153;CIGAR=1M3D4M;TYPE=del;mapq=25;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 1/1:50:2:65:48:1228:-10,-5.78836,0 0/0:7:7:233:0:0:0,-2.10721,-10 0/1:27:10:342:17:358:-10,0,-10 1 63792 . G T 14.0 . AB=1;ABP=9.52472;AC=1;AF=0.0454545;AN=22;AO=9;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:78:78:2925:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:29:28:1022:1:37:0,-3.56747,-10 1 64235 . T C 93.8 . AB=0.428571;ABP=3.63072;AC=1;AF=0.0333333;AN=30;AO=6;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:14:8:305:6:205:-10,0,-10 .:.:.:.:.:.:. 0/0:5:5:186:0:0:0,-1.50515,-10 1 64428 . G A 1861.7 . AB=0.390533;ABP=20.6005;AC=6;AF=0.176471;AN=34;AO=66;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:32:25:942:7:259:-10,0,-10 0/0:19:19:730:0:0:0,-5.71957,-10 0/1:25:10:393:15:515:-10,0,-10 1 64442 . G A 1173.5 . AB=0.281437;ABP=72.3024;AC=7;AF=0.205882;AN=34;AO=47;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:28:28:1079:0:0:0,-8.42884,-10 0/1:18:11:424:7:271:-10,0,-10 0/1:27:22:809:5:186:-10,0,-10 1 64517 . GG T 247.7 . AB=0.48;ABP=3.27088;AC=7;AF=0.205882;AN=34;AO=37;CIGAR=1M1D4M1X1M;TYPE=complex GT:DP:RO:QR:AO:QA:GL 0/0:22:19:589:0:0:0,-5.71957,-10 0/0:9:8:226:0:0:0,-2.40824,-10 0/0:18:18:517:0:0:0,-5.41854,-10 1 64548 . ACTAG CCTAA 1161.6 . AB=0.396947;ABP=15.0943;AC=13;AF=0.382353;AN=34;AO=52;CIGAR=1X3M1X;TYPE=complex;mapq=40;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/0:18:18:639:0:0:0,-5.41854,-10 0/1:5:2:70:3:94:-8.26818,0,-6.14485 0/1:15:11:385:4:156:-10,0,-10 1 64613 . T A 1408.7 . AB=0.224852;ABP=225.271;AC=9;AF=0.264706;AN=34;AO=82;CIGAR=1X;TYPE=snp;mapq=46;coverage=5;xdp2=3,2 GT:DP:RO:QR:AO:QA:GL 0/1:47:41:1511:6:218:-10,0,-10 0/1:19:9:340:10:335:-10,0,-10 0/1:42:30:1063:12:417:-10,0,-10 1 64832 . C T 81.9 . AB=0.142857;ABP=127.094;AC=4;AF=0.117647;AN=34;AO=36;CIGAR=1X;TYPE=snp;mapq=27;coverage=9;xdp2=3,6 GT:DP:RO:QR:AO:QA:GL 0/0:63:58:2183:4:153:-1.10265,0,-10 0/1:12:9:336:3:117:-9.65006,0,-10 0/0:47:44:1589:3:107:-0.0481738,0,-10 1 64927 . G T 310.2 . AB=0.314815;ABP=19.0953;AC=3;AF=0.0882353;AN=34;AO=27;CIGAR=1X;TYPE=snp;mapq=36.5;coverage=2;xdp2=0,2 GT:DP:RO:QR:AO:QA:GL 0/0:63:61:2264:2:78:0,-8.26419,-10 0/1:16:8:274:8:309:-10,0,-10 0/0:35:33:1193:2:80:0,-0.161533,-10 1 64976 . C T 1379.6 . AB=0.358333;ABP=23.9288;AC=14;AF=0.411765;AN=34;AO=67;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:58:54:1992:4:141:-1.2104,0,-10 0/1:2:0:0:2:78:-7.41,-0.60206,0 0/1:32:28:1036:4:152:-8.98286,0,-10 1 65745 . A G 19.4 . AB=0.3;ABP=6.48466;AC=2;AF=0.0666667;AN=30;AO=6;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:25:25:918:0:0:0,-7.52575,-10 0/1:1:0:0:1:39:-3.9,-0.30103,0 0/0:9:8:293:1:36:-1.84497,0,-10 1 65797 . T C 401.7 . AB=0.294118;ABP=34.305;AC=10;AF=0.294118;AN=34;AO=26;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:33:33:1262:0:0:0,-9.93399,-10 0/1:4:0:0:4:145:-10,-1.20412,0 0/1:13:11:418:2:65:-4.1537,0,-10 1 65872 . T G 2125.4 . AB=0.407407;ABP=15.074;AC=16;AF=0.470588;AN=34;AO=82;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:41:41:1527:0:0:0,-10,-10 1/1:6:0:0:6:227:-10,-1.80618,0 0/1:21:9:324:12:460:-10,0,-10 1 66008 . C G 575.8 . AB=0.280374;ABP=47.84;AC=6;AF=0.1875;AN=32;AO=37;CIGAR=1X;TYPE=snp;mapq=27;coverage=1;xdp2=1,0 GT:DP:RO:QR:AO:QA:GL 0/0:63:63:2381:0:0:0,-10,-10 0/1:3:0:0:3:108:-10,-0.90309,0 0/1:21:18:709:3:109:-6.97556,0,-10 1 66160 . TTATATA T 3221.7 . AB=0.489796;ABP=3.09893;AC=11;AF=0.323529;AN=34;AO=63;CIGAR=1M6D9M;TYPE=del;mapq=27;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:31:30:1151:0:0:0,-9.0309,-10 ./.:8:0:0:0:0:-10,-10,-10 0/.:28:14:549:0:0:-10,-10,-10 1 66162 . A T 3221.7 . AB=0.514851;ABP=3.3973;AC=16;AF=0.470588;AN=34;AO=118;CIGAR=2M1X13M;TYPE=snp;mapq=27;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:31:30:1151:0:0:0,-9.0309,-10 1/1:8:0:0:8:207:-10,-2.40824,0 0/1:28:14:549:14:447:-10,0,-10 1 66221 . A AT 968.3 . AB=0.411215;ABP=10.3365;AC=12;AF=0.352941;AN=34;AO=47;CIGAR=1M1I2M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/0:5:5:196:0:0:0,-1.50515,-10 0/1:4:2:81:2:69:-6.12903,0,-7.26903 0/1:24:14:537:9:300:-10,0,-10 1 66225 . AT A 1000.6 . AB=0.393939;ABP=12.6832;AC=12;AF=0.375;AN=32;AO=41;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:5:5:198:0:0:0,-1.50515,-10 0/1:4:2:81:2:62:-5.46403,0,-7.26903 0/1:22:14:541:8:309:-10,0,-10 1 66229 . T TACA 15.5 . AB=0.5;ABP=3.0103;AC=1;AF=0.0333333;AN=30;AO=2;CIGAR=1M3I1M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/0:5:5:181:0:0:0,-1.50515,-10 0/1:4:2:76:2:78:-6.98403,0,-6.79403 0/0:22:22:848:0:0:0,-6.62266,-10 1 66231 . TAATA T 6.9 . AB=0.5;ABP=3.0103;AC=1;AF=0.0357143;AN=28;AO=2;CIGAR=1M4D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:4:2:75:2:67:-5.93903,0,-6.69903 0/0:4:4:147:0:0:0,-1.20412,-10 0/0:20:20:776:0:0:0,-6.0206,-10 1 66248 . TATA T 303.7 . AB=0.414634;ABP=5.60547;AC=5;AF=0.3125;AN=16;AO=18;CIGAR=1M3D4M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:2:2:79:0:0:0,-0.60206,-7.505 0/0:2:0:0:0:0:0,0,0 0/1:15:11:428:4:135:-10,0,-10 1 66258 . A T 21.1 . AB=1;ABP=7.35324;AC=1;AF=0.0625;AN=16;AO=2;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:2:2:82:0:0:0,-0.60206,-7.79 0/1:2:0:0:2:82:-7.79,-0.60206,0 0/0:18:18:694:0:0:0,-5.41854,-10 1 66262 . TAA T 287.5 . AB=0.317073;ABP=14.9269;AC=4;AF=0.285714;AN=14;AO=13;CIGAR=1M2D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:2:2:76:0:0:0,-0.60206,-7.22 .:.:.:.:.:.:. 0/1:16:12:456:4:153:-10,0,-10 1 66275 . AAT A 95.3 . AB=0.206897;ABP=24.6501;AC=2;AF=0.142857;AN=14;AO=7;CIGAR=1M2D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:1:1:30:0:0:0,-0.30103,-3 0/0:2:2:79:0:0:0,-0.60206,-7.505 0/1:20:13:491:3:116:-8.38528,0,-10 1 66289 . AT A 43.0 . AB=0.272727;ABP=7.94546;AC=1;AF=0.0833333;AN=12;AO=4;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/0:22:21:806:1:41:0,-1.18024,-10 1 66300 . A ATAT 88.4 . AB=0.16129;ABP=33.9012;AC=1;AF=0.0833333;AN=12;AO=5;CIGAR=2M3I1M;TYPE=ins GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/.:21:16:612:1:41:-8.16175,-8.35631,-10 1 66300 . A AT 88.4 . AB=0.16129;ABP=33.9012;AC=1;AF=0.0833333;AN=12;AO=5;CIGAR=2M1I1M;TYPE=ins GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:21:16:612:3:121:-8.16175,0,-10 1 66312 . A T 108.1 . AB=0.170732;ABP=41.6201;AC=3;AF=0.25;AN=12;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:21:19:748:2:82:-3.79059,0,-10 1 66335 . T A 756.9 . AB=0.345679;ABP=19.7655;AC=6;AF=0.5;AN=12;AO=28;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:33:22:870:11:384:-10,0,-10 1 66336 . T A 167.7 . AB=0.169231;ABP=64.7803;AC=3;AF=0.25;AN=12;AO=11;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:33:29:1143:4:159:-9.38545,0,-10 1 66359 . T TA 286.4 . AB=0.175258;ABP=91.8616;AC=5;AF=0.357143;AN=14;AO=17;CIGAR=1M1I2M;TYPE=ins GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:43:36:1408:7:265:-10,0,-10 1 66363 . TA T 1156.8 . AB=0.412371;ABP=9.47994;AC=7;AF=0.5;AN=14;AO=40;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:40:26:1035:14:539:-10,0,-10 1 66369 . TA T 765.7 . AB=0.263158;ABP=49.2969;AC=3;AF=0.214286;AN=14;AO=25;CIGAR=1M1D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/.:39:20:800:8:314:-10,-8.60693,-10 1 66371 . A T 765.7 . AB=0.27957;ABP=42.2602;AC=4;AF=0.285714;AN=14;AO=26;CIGAR=2M1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 0/1:39:20:800:11:404:-10,0,-10 1 66373 . ATATAA TT 1265.4 . AB=0.302632;ABP=28.7251;AC=8;AF=0.571429;AN=14;AO=26;CIGAR=1M1X1M4D1M;TYPE=complex GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. 1/.:33:0:0:11:404:-10,-10,-10 1 66375 . ATAA TAT 1265.4 . AB=0.217949;ABP=56.9074;AC=4;AF=0.285714;AN=14;AO=17;CIGAR=3M1D2M1X1M;TYPE=complex GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. ./.:33:0:0:7:264:-10,-10,-10 1 66376 . TA T 1265.4 . AB=0.223684;ABP=53.4113;AC=2;AF=0.142857;AN=14;AO=17;CIGAR=5M1D2M;TYPE=del GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. .:.:.:.:.:.:. ./1:33:0:0:9:361:-10,-10,-10 1 66432 . T TATA 710.3 . AB=0.2;ABP=128.087;AC=6;AF=0.333333;AN=18;AO=32;CIGAR=1M3I4M;TYPE=ins GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/0:3:3:119:0:0:0,-0.90309,-10 0/1:50:41:1608:8:294:-10,0,-10 1 66442 . T A 1196.0 . AB=0.258824;ABP=88.8984;AC=4;AF=0.222222;AN=18;AO=44;CIGAR=1X1M;TYPE=snp GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/.:3:2:80:0:0:-3.57403,-4.17609,-10 0/.:48:25:958:10:333:-10,-0.146852,-10 1 66442 . T TCTATATA 1196.0 . AB=0.2;ABP=139.813;AC=5;AF=0.277778;AN=18;AO=35;CIGAR=1M7I1M;TYPE=ins GT:DP:RO:QR:AO:QA:GL .:.:.:.:.:.:. 0/1:3:2:80:1:40:-3.57403,0,-7.17403 0/1:48:25:958:9:337:-10,0,-10 1 66487 . GAATAT G 168.8 . AB=0.275862;ABP=15.6647;AC=2;AF=0.125;AN=16;AO=8;CIGAR=1M5D6M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:1:1:40:0:0:0,-0.30103,-4 0/0:1:1:40:0:0:0,-0.30103,-4 0/0:17:17:659:0:0:0,-5.11751,-10 1 66507 . T A 1338.1 . AB=0.361345;ABP=22.882;AC=5;AF=0.25;AN=20;AO=43;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:2:1:41:1:41:-3.79897,0,-3.79897 .:.:.:.:.:.:. 0/1:27:18:712:9:360:-10,0,-10 1 66514 . T C 8.1 . AB=1;ABP=7.35324;AC=1;AF=0.0454545;AN=22;AO=9;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:2:1:39:1:40:-3.69897,0,-3.59897 .:.:.:.:.:.:. 0/0:27:25:971:2:81:-2.1125,0,-10 1 66520 . T G 611.7 . AB=0.27451;ABP=48.0577;AC=9;AF=0.409091;AN=22;AO=30;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:2:1:31:1:41:-3.79897,0,-2.79897 .:.:.:.:.:.:. 0/1:27:19:745:8:325:-10,0,-10 1 66521 . T TATATA 451.9 . AB=0.237624;ABP=63.403;AC=11;AF=0.5;AN=22;AO=24;CIGAR=1M5I11M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/1:2:1:40:0:0:0,-0.30103,-3.755 .:.:.:.:.:.:. 0/1:21:9:358:3:106:-8.33506,0,-10 1 66572 . GTA G 463.5 . AB=0.223529;ABP=59.443;AC=5;AF=0.227273;AN=22;AO=20;CIGAR=1M2D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:2:2:71:0:0:0,-0.60206,-6.745 0/1:1:0:0:1:39:-3.9,-0.30103,0 0/1:19:14:532:5:197:-10,0,-10 1 66577 . A C 482.1 . AB=0.210526;ABP=72.1546;AC=6;AF=0.272727;AN=22;AO=20;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:3:3:110:0:0:0,-0.90309,-10 0/1:1:0:0:1:38:-3.8,-0.30103,0 0/1:19:14:553:5:204:-10,0,-10 1 66737 . G A 13.9 . AB=0.208333;ABP=20.744;AC=2;AF=0.0666667;AN=30;AO=5;CIGAR=1X;TYPE=snp;mapq=23;coverage=4;xdp2=1,3 GT:DP:RO:QR:AO:QA:GL 0/0:46:46:1687:0:0:0,-10,-10 0/0:7:7:268:0:0:0,-2.10721,-10 0/0:26:26:916:0:0:0,-7.82678,-10 1 66814 . A G 900.3 . AB=0.493671;ABP=3.03779;AC=9;AF=0.321429;AN=28;AO=40;CIGAR=1X;TYPE=snp;mapq=19;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:62:61:2322:1:37:0,-10,-10 0/1:2:0:0:2:71:-6.745,-0.60206,0 0/0:17:17:650:0:0:0,-5.11751,-10 1 69081 . G C 15.4 . AB=0.333333;ABP=4.45795;AC=1;AF=0.0555556;AN=18;AO=2;CIGAR=1X;TYPE=snp;AC_AFR=0;AC_AMR=0;AC_EAS=0 GT:DP:RO:QR:AO:QA:GL 0/1:6:4:151:2:75:-6.49491,0,-10 .:.:.:.:.:.:. .:.:.:.:.:.:. 1 69270 . A G 1229.5 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=43;CIGAR=1X;TYPE=snp;AC_AFR=166;AC_AMR=48;AC_EAS=114 GT:DP:RO:QR:AO:QA:GL 1/1:12:0:0:12:399:-10,-3.61236,0 .:.:.:.:.:.:. 1/1:9:0:0:9:303:-10,-2.70927,0 1 69511 . A G 3184.7 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=106;CIGAR=1X;TYPE=snp;AC_AFR=4392;AC_AMR=6155;AC_EAS=8379;ID=rs75062661 GT:DP:RO:QR:AO:QA:GL 1/1:23:0:0:23:818:-10,-6.92369,0 .:.:.:.:.:.:. 1/1:18:0:0:18:626:-10,-5.41854,0 1 69897 . T C 1013.8 . AB=0.733333;ABP=10.1038;AC=11;AF=0.916667;AN=12;AO=33;CIGAR=1X;TYPE=snp;AC_AFR=90;AC_AMR=28;AC_EAS=62 GT:DP:RO:QR:AO:QA:GL 0/1:15:4:161:11:407:-10,0,-10 .:.:.:.:.:.:. 1/1:8:0:0:8:301:-10,-2.40824,0 1 70728 . C T 1921.6 . AB=0.374046;ABP=21.0617;AC=10;AF=0.294118;AN=34;AO=74;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:42:42:1481:0:0:0,-10,-10 0/0:8:8:293:0:0:0,-2.40824,-10 0/0:26:26:948:0:0:0,-7.82678,-10 1 70761 . T C 47.3 . AB=0.454545;ABP=3.20771;AC=3;AF=0.115385;AN=26;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:25:25:945:0:0:0,-7.52575,-10 0/0:1:1:34:0:0:0,-0.30103,-3.4 0/0:6:5:176:1:8:0,-0.228029,-10 1 71807 . A C 289.1 . AB=0.6;ABP=4.74748;AC=1;AF=0.03125;AN=32;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:20:8:306:12:452:-10,0,-10 0/0:10:10:387:0:0:0,-3.0103,-10 0/0:7:7:273:0:0:0,-2.10721,-10 1 71846 . CT C 36.2 . AB=0.296296;ABP=12.7417;AC=3;AF=0.107143;AN=28;AO=12;CIGAR=1M1D15M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:14:9:322:3:102:-8.02406,0,-10 0/0:9:9:333:0:0:0,-2.70927,-10 0/0:9:8:288:1:1:0,-1.65503,-10 1 71875 . G A 1377.4 . AB=0.513889;ABP=3.13094;AC=19;AF=0.678571;AN=28;AO=75;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:27:25:717:2:14:0,-4.2525,-10 1/1:9:0:0:9:289:-10,-2.70927,0 0/1:10:5:127:5:169:-10,0,-10 1 71907 . T G 1000.0 . AB=0.546875;ABP=4.23175;AC=7;AF=0.269231;AN=26;AO=45;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:26:17:630:9:284:-10,0,-10 0/0:2:2:65:0:0:0,-0.60206,-6.175 0/1:9:2:66:7:235:-10,0,-5.11703 1 72446 . T A 442.7 . AB=0.333333;ABP=15.3153;AC=1;AF=0.0714286;AN=14;AO=17;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:51:34:1262:17:594:-10,0,-10 .:.:.:.:.:.:. 0/0:21:21:723:0:0:0,-6.32163,-10 1 72787 . C T 478.8 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=16;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:3:0:0:3:94:-8.77333,-0.90309,0 .:.:.:.:.:.:. 1/1:1:0:0:1:34:-3.4,-0.30103,0 1 72862 . G A 3209.9 . AB=0.462185;ABP=4.48836;AC=24;AF=0.705882;AN=34;AO=114;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:36:36:1356:0:0:0,-10,-10 1/1:9:0:0:9:349:-10,-2.70927,0 0/1:12:8:300:4:151:-10,0,-10 1 72893 . T C 2485.2 . AB=0.39779;ABP=19.4343;AC=16;AF=0.470588;AN=34;AO=94;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:45:45:1703:0:0:0,-10,-10 1/1:12:0:0:12:456:-10,-3.61236,0 0/1:16:13:458:3:117:-8.85171,0,-10 1 73233 . T C 1.2 . AB=1;ABP=7.35324;AC=1;AF=0.0454545;AN=22;AO=9;CIGAR=1X;TYPE=snp;mapq=18;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:69:69:2545:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:22:21:799:1:41:0,-1.18024,-10 1 73259 . C T 77.1 . AB=0.37037;ABP=6.95112;AC=3;AF=0.107143;AN=28;AO=19;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:79:79:2949:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:29:27:993:2:68:-0.338656,0,-10 1 73353 . T C 1028.1 . AB=0.535714;ABP=3.63072;AC=9;AF=0.264706;AN=34;AO=40;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:22:22:826:0:0:0,-6.62266,-10 0/0:3:3:117:0:0:0,-0.90309,-10 0/0:14:14:543:0:0:0,-4.21442,-10 1 73648 . C G 2.4 . AB=0.2;ABP=10.8276;AC=1;AF=0.0384615;AN=26;AO=2;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:18:18:655:0:0:0,-5.41854,-10 0/0:2:2:73:0:0:0,-0.60206,-6.935 0/0:12:12:455:0:0:0,-3.61236,-10 1 73673 . CAT C 32.6 . AB=0.230769;ABP=11.1951;AC=1;AF=0.0384615;AN=26;AO=3;CIGAR=1M2D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:13:10:364:3:108:-8.62298,0,-10 0/0:1:1:35:0:0:0,-0.30103,-3.5 0/0:10:10:382:0:0:0,-3.0103,-10 1 73841 . C T 5.4 . AB=0.206897;ABP=24.6501;AC=2;AF=0.0714286;AN=28;AO=18;CIGAR=1X;TYPE=snp;mapq=6;coverage=1;xdp2=1,0 GT:DP:RO:QR:AO:QA:GL 0/0:86:85:2909:1:7:0,-10,-10 0/1:4:1:7:3:81:-6.95794,0,-0.09794 0/0:34:33:1144:1:11:0,-7.60354,-10 1 73883 . T A 2.5 . AB=0.666667;ABP=3.73412;AC=1;AF=0.0384615;AN=26;AO=4;CIGAR=1X;TYPE=snp;mapq=6;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:59:58:1856:1:7:0,-10,-10 0/0:1:1:10:0:0:0,-0.30103,-1 0/0:21:21:708:0:0:0,-6.32163,-10 1 74555 . A G 501.0 . AB=0.27957;ABP=42.2602;AC=12;AF=0.352941;AN=34;AO=26;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:15:15:569:0:0:0,-4.51545,-10 0/1:6:4:162:2:81:-7.06491,0,-10 0/0:9:9:351:0:0:0,-2.70927,-10 1 74570 . T A 151.3 . AB=0.229508;ABP=41.7764;AC=7;AF=0.21875;AN=32;AO=16;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:17:17:609:0:0:0,-5.11751,-10 0/1:6:4:156:2:78:-6.77991,0,-10 0/0:7:7:267:0:0:0,-2.10721,-10 1 74681 . G T 8746.2 . AB=0.774194;ABP=104.229;AC=26;AF=0.764706;AN=34;AO=296;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:38:0:0:38:1414:-10,-10,0 0/1:12:3:106:9:346:-10,0,-8.6234 1/1:23:1:35:22:824:-10,-2.06196,0 1 74709 . T A 313.9 . AB=0.177966;ABP=109.302;AC=6;AF=0.176471;AN=34;AO=31;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:46:46:1610:0:0:0,-10,-10 0/1:12:10:356:2:82:-5.99718,0,-10 0/0:26:25:878:1:40:0,-2.41181,-10 1 74764 . A T 495.4 . AB=0.266187;ABP=69.0137;AC=14;AF=0.411765;AN=34;AO=56;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:51:51:1800:0:0:0,-10,-10 0/1:3:1:37:2:61:-5.36903,0,-3.27403 0/0:24:22:782:2:69:-1.77119,0,-10 1 74771 . A G 146.3 . AB=0.4;ABP=6.91895;AC=9;AF=0.28125;AN=32;AO=35;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:54:52:1918:2:72:0,-6.25998,-10 0/1:2:0:0:2:70:-6.65,-0.60206,0 0/0:25:24:890:1:35:0,-2.62781,-10 1 75139 . C G 2352.7 . AB=0.407821;ABP=16.2211;AC=15;AF=0.441176;AN=34;AO=88;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:24:24:886:0:0:0,-7.22472,-10 0/1:10:1:36:9:348:-10,0,-1.5897 0/1:18:11:415:7:267:-10,0,-10 1 75194 . G C 1087.8 . AB=0.329114;ABP=23.0483;AC=18;AF=0.529412;AN=34;AO=47;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:27:27:1021:0:0:0,-8.12781,-10 0/1:3:1:38:2:79:-7.07903,0,-3.37403 0/1:9:7:243:1:41:-2.35485,0,-10 1 75206 . G A 813.0 . AB=0.352941;ABP=15.7837;AC=17;AF=0.53125;AN=32;AO=39;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:26:26:904:0:0:0,-7.82678,-10 0/1:2:0:0:2:77:-7.315,-0.60206,0 0/0:8:8:252:0:0:0,-2.40824,-10 1 76573 . C T 186.5 . AB=0.197183;ABP=59.5603;AC=4;AF=0.125;AN=32;AO=19;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:63:62:2258:1:37:0,-10,-10 0/0:1:1:37:0:0:0,-0.30103,-3.7 0/0:24:24:922:0:0:0,-7.22472,-10 1 76610 . C A 1.1 . AB=0.666667;ABP=3.73412;AC=1;AF=0.0384615;AN=26;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:66:66:2459:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:24:22:825:2:64:-1.29619,0,-10 1 77202 . T A 239.8 . AB=0.359223;ABP=38.4707;AC=20;AF=0.588235;AN=34;AO=87;CIGAR=1X4M;TYPE=snp;mapq=37;coverage=1;xdp2=1,0 GT:DP:RO:QR:AO:QA:GL 0/1:36:21:709:7:91:-5.85319,0,-10 0/1:5:1:39:4:30:-1.96882,0,-3.09382 0/1:19:8:260:8:109:-9.14643,0,-10 1 77430 . G A 37.1 . AB=0.666667;ABP=4.45795;AC=2;AF=0.0588235;AN=34;AO=10;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:64:64:2395:0:0:0,-10,-10 0/0:3:3:111:0:0:0,-0.90309,-10 0/0:25:24:912:1:39:0,-2.22781,-10 1 77462 . G A 4.8 . AB=1;ABP=7.35324;AC=1;AF=0.0357143;AN=28;AO=13;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:63:61:2300:1:38:0,-10,-10 0/1:2:0:0:2:82:-7.79,-0.60206,0 0/0:38:37:1457:1:40:0,-5.85936,-10 1 78061 . C G 1159.2 . AB=0.422222;ABP=7.73928;AC=1;AF=0.0714286;AN=14;AO=38;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:90:52:1982:38:1440:-10,0,-10 .:.:.:.:.:.:. 0/0:21:21:806:0:0:0,-6.32163,-10 1 79033 . A G 338.7 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:2:0:0:2:35:-3.325,-0.60206,0 .:.:.:.:.:.:. 1/1:1:0:0:1:35:-3.5,-0.30103,0 1 79050 . G T 616.4 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=20;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:6:0:0:6:225:-10,-1.80618,0 .:.:.:.:.:.:. 1/1:1:0:0:1:35:-3.5,-0.30103,0 1 79301 . C A 428.9 . AB=0.326923;ABP=16.5402;AC=2;AF=0.1;AN=20;AO=17;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:52:34:1073:17:606:-10,0,-10 .:.:.:.:.:.:. 0/0:16:16:532:0:0:0,-4.81648,-10 1 79629 . A C 762.7 . AB=0.388889;ABP=10.7311;AC=2;AF=0.125;AN=16;AO=28;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:72:44:1555:28:963:-10,0,-10 .:.:.:.:.:.:. 0/0:25:25:896:0:0:0,-7.52575,-10 1 79898 . A G 614.5 . AB=0.318841;ABP=22.6794;AC=1;AF=0.0714286;AN=14;AO=22;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:69:47:1699:22:795:-10,0,-10 .:.:.:.:.:.:. 0/0:22:22:824:0:0:0,-6.62266,-10 1 80849 . G C 156.8 . AB=0.388889;ABP=4.9405;AC=1;AF=0.0714286;AN=14;AO=7;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:18:11:411:7:268:-10,0,-10 .:.:.:.:.:.:. 0/0:8:8:297:0:0:0,-2.40824,-10 1 82133 . CAA C 739.0 . AB=0.509434;ABP=3.05127;AC=11;AF=0.6875;AN=16;AO=47;CIGAR=1M2D20M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:29:4:131:12:210:-10,0,-10 .:.:.:.:.:.:. 0/1:15:3:95:9:225:-10,0,-7.40006 1 82162 . C A 136.6 . AB=0.928571;ABP=25.3454;AC=5;AF=0.178571;AN=28;AO=18;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:85:85:2614:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:27:27:903:0:0:0,-8.12781,-10 1 82249 . A G 209.7 . AB=0.424242;ABP=4.65535;AC=4;AF=0.166667;AN=24;AO=18;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:86:85:3166:1:41:0,-10,-10 .:.:.:.:.:.:. 0/0:15:15:545:0:0:0,-4.51545,-10 1 82400 . G A 605.2 . AB=0.30137;ABP=28.0269;AC=2;AF=0.0625;AN=32;AO=22;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:73:51:1911:22:815:-10,0,-10 0/0:2:2:68:0:0:0,-0.60206,-6.46 0/0:25:25:945:0:0:0,-7.52575,-10 1 82652 . C G 830.5 . AB=0.291667;ABP=39.2015;AC=1;AF=0.0714286;AN=14;AO=29;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:96:68:2465:28:1063:-10,0,-10 .:.:.:.:.:.:. 0/0:30:30:1140:0:0:0,-9.0309,-10 1 83084 . T A 5099.6 . AB=0;ABP=0;AC=14;AF=1;AN=14;AO=155;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:32:0:0:32:1251:-10,-9.63296,0 .:.:.:.:.:.:. 1/1:20:0:0:20:774:-10,-6.0206,0 1 83514 . C T 1419.2 . AB=0.782609;ABP=18.9659;AC=14;AF=0.777778;AN=18;AO=51;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:23:5:155:18:608:-10,0,-10 .:.:.:.:.:.:. 1/1:6:0:0:6:205:-10,-1.80618,0 1 83574 . G T 280.6 . AB=0.285714;ABP=19.7617;AC=1;AF=0.0416667;AN=24;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:42:30:1120:12:433:-10,0,-10 .:.:.:.:.:.:. 0/0:7:7:266:0:0:0,-2.10721,-10 1 83786 . T TA 75.9 . AB=0.413043;ABP=6.03148;AC=5;AF=0.178571;AN=28;AO=33;CIGAR=1M1I9M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/0:74:73:2710:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:22:20:728:2:6:0,-3.68905,-10 1 83819 . A AAGAAAG 342.3 . AB=0.394366;ABP=9.89173;AC=7;AF=0.25;AN=28;AO=29;CIGAR=5M6I9M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/0:64:61:2187:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:19:19:675:0:0:0,-5.71957,-10 1 83829 . G GAGAA 469.4 . AB=0.363636;ABP=8.34028;AC=6;AF=0.230769;AN=26;AO=14;CIGAR=1M4I45M;TYPE=ins GT:DP:RO:QR:AO:QA:GL 0/.:37:26:979:0:0:-10,-10,-10 .:.:.:.:.:.:. 0/0:10:10:343:0:0:0,-3.0103,-10 1 83829 . GAGAA G 469.4 . AB=0;ABP=0;AC=2;AF=0.0769231;AN=26;AO=16;CIGAR=1M4D41M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/.:37:26:979:0:0:-10,-10,-10 .:.:.:.:.:.:. 0/0:10:10:343:0:0:0,-3.0103,-10 1 83854 . AGAAAGAAAGAAAGAAAG GAGAAAGAAAGAAAGAAGA 469.4 . AB=0.189189;ABP=34.0565;AC=1;AF=0.0384615;AN=26;AO=7;CIGAR=25M1I16M2X3M;TYPE=complex GT:DP:RO:QR:AO:QA:GL 0/1:37:26:979:7:184:-10,0,-10 .:.:.:.:.:.:. 0/0:10:10:343:0:0:0,-3.0103,-10 1 83878 . AAGAAAGAAAG A 10.1 . AB=0.170732;ABP=41.6201;AC=3;AF=0.09375;AN=32;AO=18;CIGAR=1M10D1M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/0:90:87:3239:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:26:24:897:1:40:0,-2.36281,-10 1 83895 . GAGAA G 1472.9 . AB=0.609756;ABP=11.5903;AC=6;AF=0.230769;AN=26;AO=50;CIGAR=1M4D13M;TYPE=del GT:DP:RO:QR:AO:QA:GL 0/1:82:25:926:50:1839:-10,0,-10 .:.:.:.:.:.:. 0/0:30:29:1089:0:0:0,-8.72987,-10 1 83978 . G A 36.4 . AB=0.25;ABP=13.8677;AC=1;AF=0.0384615;AN=26;AO=5;CIGAR=1X;TYPE=snp;mapq=35;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:99:99:3560:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:27:27:956:0:0:0,-8.12781,-10 1 83998 . G A 2231.2 . AB=0.252964;ABP=137.118;AC=3;AF=0.115385;AN=26;AO=64;CIGAR=1X1M;TYPE=snp;mapq=35;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:99:66:2388:24:845:-10,0,-10 .:.:.:.:.:.:. 0/.:20:6:218:5:149:-10,-10,-10 1 83998 . G GAAAA 2231.2 . AB=0.258621;ABP=120.42;AC=4;AF=0.153846;AN=26;AO=60;CIGAR=1M4I1M;TYPE=ins;mapq=35;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/.:99:66:2388:9:279:-10,-10,-10 .:.:.:.:.:.:. 0/1:20:6:218:9:315:-10,0,-10 1 84002 . G A 2055.1 . AB=0.278571;ABP=122.255;AC=8;AF=0.285714;AN=28;AO=78;CIGAR=1X;TYPE=snp;mapq=35;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/1:110:95:3465:15:537:-10,0,-10 .:.:.:.:.:.:. 0/1:21:14:501:7:247:-10,0,-10 1 84026 . GAA G 338.3 . AB=0.758621;ABP=19.8579;AC=7;AF=0.233333;AN=30;AO=31;CIGAR=1M2D1M;TYPE=del;mapq=34.5;coverage=2;xdp2=1,1 GT:DP:RO:QR:AO:QA:GL 0/0:120:119:4285:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:29:27:939:0:0:0,-8.12781,-10 1 84133 . A T 2789.0 . AB=0.460526;ABP=6.09608;AC=8;AF=0.235294;AN=34;AO=105;CIGAR=1X;TYPE=snp;mapq=29.6667;coverage=3;xdp2=1,2 GT:DP:RO:QR:AO:QA:GL 0/0:91:91:3219:0:0:0,-10,-10 0/0:8:8:310:0:0:0,-2.40824,-10 0/0:43:43:1569:0:0:0,-10,-10 1 84214 . AT A 31.4 . AB=0.492063;ABP=3.04477;AC=5;AF=0.178571;AN=28;AO=62;CIGAR=1M1D6M;TYPE=del;mapq=27.5;coverage=2;xdp2=0,2 GT:DP:RO:QR:AO:QA:GL 0/0:94:93:3532:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:33:32:1215:1:15:0,-6.91548,-10 1 84230 . T C 851.5 . AB=0.223958;ABP=130.087;AC=9;AF=0.28125;AN=32;AO=49;CIGAR=1X;TYPE=snp;mapq=15;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:100:100:3771:0:0:0,-10,-10 0/0:1:0:0:1:36:-3.6,-0.30103,0 0/0:32:30:1166:2:74:-0.0925218,0,-10 1 84307 . C A 3840.1 . AB=0.348432;ABP=60.2782;AC=19;AF=0.558824;AN=34;AO=144;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:112:110:4158:2:77:0,-10,-10 0/1:3:0:0:3:123:-10,-0.90309,0 0/1:34:27:1051:7:253:-10,0,-10 1 85022 . G A 2889.1 . AB=0.378788;ABP=36.701;AC=8;AF=0.235294;AN=34;AO=100;CIGAR=1X;TYPE=snp;mapq=27;coverage=10;xdp2=6,4 GT:DP:RO:QR:AO:QA:GL 0/0:102:100:3656:0:0:0,-10,-10 0/0:9:9:337:0:0:0,-2.70927,-10 0/0:42:42:1546:0:0:0,-10,-10 1 85150 . G A 100.9 . AB=1;ABP=29.068;AC=4;AF=0.142857;AN=28;AO=26;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:95:95:3612:0:0:0,-10,-10 0/0:1:0:0:1:35:-3.5,-0.30103,0 0/0:46:46:1763:0:0:0,-10,-10 1 85200 . T C 1.4 . AB=1;ABP=9.52472;AC=1;AF=0.0454545;AN=22;AO=10;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:91:91:3410:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:34:33:1281:1:35:0,-5.20354,-10 1 87190 . G A 636.0 . AB=0.349206;ABP=15.4532;AC=1;AF=0.0714286;AN=14;AO=22;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:63:41:1446:22:808:-10,0,-10 .:.:.:.:.:.:. 0/0:34:34:1240:0:0:0,-10,-10 1 88169 . C T 250.5 . AB=0.203125;ABP=52.0041;AC=1;AF=0.0714286;AN=14;AO=13;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:64:51:1877:13:415:-10,0,-10 .:.:.:.:.:.:. 0/0:23:23:790:0:0:0,-6.92369,-10 1 88338 . G A 610.8 . AB=0.359375;ABP=14.0034;AC=1;AF=0.0625;AN=16;AO=23;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:64:40:1306:23:797:-10,0,-10 .:.:.:.:.:.:. 0/0:20:20:677:0:0:0,-6.0206,-10 1 88370 . G A 587.5 . AB=0.366667;ABP=12.2752;AC=1;AF=0.0625;AN=16;AO=22;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:60:38:1266:22:763:-10,0,-10 0/0:1:1:37:0:0:0,-0.30103,-3.7 0/0:21:21:766:0:0:0,-6.32163,-10 1 89946 . A T 487.5 . AB=0;ABP=0;AC=2;AF=0.142857;AN=14;AO=20;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:82:82:3025:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:32:31:1142:1:17:0,-6.42781,-10 1 91119 . C T 262.4 . AB=0.264151;ABP=28.6173;AC=1;AF=0.0454545;AN=22;AO=14;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:53:39:1297:14:417:-10,0,-10 0/0:2:2:67:0:0:0,-0.60206,-6.365 0/0:23:23:741:0:0:0,-6.92369,-10 1 91256 . A G 78.3 . AB=0.209302;ABP=34.5724;AC=4;AF=0.166667;AN=24;AO=14;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:56:53:1754:2:82:0,-5.77826,-10 0/0:2:2:76:0:0:0,-0.60206,-7.22 0/0:10:10:353:0:0:0,-3.0103,-10 1 91268 . G A 125.3 . AB=0.243902;ABP=26.3669;AC=5;AF=0.208333;AN=24;AO=14;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:48:45:1380:2:81:0,-3.58792,-10 0/0:2:2:74:0:0:0,-0.60206,-7.03 0/0:12:12:361:0:0:0,-3.61236,-10 1 91336 . A T 290.1 . AB=0.444444;ABP=3.73412;AC=2;AF=0.125;AN=16;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:26:15:516:11:382:-10,0,-10 0/1:1:0:0:1:33:-3.3,-0.30103,0 0/0:14:14:465:0:0:0,-4.21442,-10 1 91475 . G A 429.0 . AB=0.357143;ABP=12.937;AC=9;AF=0.45;AN=20;AO=23;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:38:28:964:10:358:-10,0,-10 .:.:.:.:.:.:. 0/1:4:1:5:3:111:-9.86,-0.10206,0 1 91486 . GTACA CTACG 46.6 . AB=0.454545;ABP=3.20771;AC=4;AF=0.222222;AN=18;AO=6;CIGAR=1X3M1X;TYPE=complex GT:DP:RO:QR:AO:QA:GL 0/0:25:23:809:1:38:0,-2.26951,-10 .:.:.:.:.:.:. 0/1:1:0:0:1:39:-3.9,-0.30103,0 1 91581 . G A 542.8 . AB=0.217391;ABP=18.9659;AC=16;AF=0.8;AN=20;AO=22;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:20:17:579:2:72:-3.17343,0,-10 0/1:1:0:0:1:40:-4,-0.30103,0 1/1:3:0:0:3:104:-9.70667,-0.90309,0 1 91731 . G A 1953.5 . AB=0.666667;ABP=12.42;AC=17;AF=0.772727;AN=22;AO=68;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:33:12:443:21:714:-10,0,-10 0/1:1:1:39:0:0:0,-0.30103,-3.9 1/1:10:0:0:10:345:-10,-3.0103,0 1 92481 . G A 114.6 . AB=0.27027;ABP=19.9713;AC=6;AF=0.176471;AN=34;AO=11;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:13:13:430:0:0:0,-3.91339,-10 0/1:4:3:116:1:41:-3.49794,0,-10 0/0:6:6:203:0:0:0,-1.80618,-10 1 92633 . C T 629.6 . AB=0.857143;ABP=34.0313;AC=2;AF=0.0833333;AN=24;AO=25;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:48:48:1571:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:31:31:1001:0:0:0,-9.33193,-10 1 92654 . T C 65.1 . AB=0.857143;ABP=18.5208;AC=4;AF=0.125;AN=32;AO=26;CIGAR=1X;TYPE=snp;mapq=10;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/0:56:53:1669:3:62:0,-6.62822,-10 0/1:3:0:0:3:59:-5.50667,-0.90309,0 0/0:32:30:975:1:7:0,-7.20557,-10 1 92858 . G T 807.0 . AB=0;ABP=0;AC=2;AF=0.125;AN=16;AO=29;CIGAR=1X;TYPE=snp;mapq=31;coverage=1;xdp2=0,1 GT:DP:RO:QR:AO:QA:GL 0/0:74:74:2761:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:28:28:1042:0:0:0,-8.42884,-10 1 92875 . T C 747.8 . AB=0;ABP=0;AC=2;AF=0.0909091;AN=22;AO=29;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:75:75:2750:0:0:0,-10,-10 .:.:.:.:.:.:. 0/0:30:30:1126:0:0:0,-9.0309,-10 1 92930 . G T 50.1 . AB=0.225806;ABP=23.254;AC=2;AF=0.0625;AN=32;AO=11;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:43:42:1526:1:29:0,-8.41082,-10 0/0:4:4:152:0:0:0,-1.20412,-10 0/0:23:23:800:0:0:0,-6.92369,-10 1 93757 . C T 61.6 . AB=0.222222;ABP=15.074;AC=1;AF=0.0714286;AN=14;AO=4;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:18:14:516:4:155:-10,0,-10 .:.:.:.:.:.:. 0/0:7:7:253:0:0:0,-2.10721,-10 1 94260 . G A 57.4 . AB=0.285714;ABP=8.59409;AC=1;AF=0.0333333;AN=30;AO=5;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:45:45:1548:0:0:0,-10,-10 0/1:14:10:376:4:154:-10,0,-10 0/0:12:12:442:0:0:0,-3.61236,-10 1 94271 . C G 4600.8 . AB=0.560166;ABP=10.5879;AC=18;AF=0.6;AN=30;AO=165;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:47:34:1165:13:490:-10,0,-10 0/1:14:4:156:10:381:-10,0,-10 0/1:13:10:381:3:104:-8.24964,0,-10 1 94570 . T G 614.0 . AB=0.328947;ABP=22.325;AC=15;AF=0.441176;AN=34;AO=32;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:14:12:450:2:82:-5.53462,0,-10 0/0:7:6:227:1:29:-1.63789,0,-10 0/0:6:6:214:0:0:0,-1.80618,-10 1 94699 . G A 22.3 . AB=0.24;ABP=17.6895;AC=3;AF=0.0882353;AN=34;AO=9;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:45:45:1655:0:0:0,-10,-10 0/1:6:4:144:2:72:-6.20991,0,-10 0/0:11:11:414:0:0:0,-3.31133,-10 1 94725 . C T 51.0 . AB=1;ABP=13.8677;AC=3;AF=0.107143;AN=28;AO=9;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:42:42:1539:0:0:0,-10,-10 0/0:3:3:114:0:0:0,-0.90309,-10 0/0:13:12:474:1:9:0,-1.89945,-10 1 94819 . C T 316.5 . AB=0.217082;ABP=198.373;AC=6;AF=0.176471;AN=34;AO=101;CIGAR=1X;TYPE=snp;mapq=33.5;coverage=4;xdp2=4,0 GT:DP:RO:QR:AO:QA:GL 0/1:94:76:2505:18:295:-10,0,-10 0/0:22:20:520:2:37:0,-0.744048,-10 0/0:48:39:1379:9:107:-4.52401,0,-10 1 94824 . C T 6727.2 . AB=0.423369;ABP=36.6236;AC=17;AF=0.5;AN=34;AO=279;CIGAR=1X;TYPE=snp;mapq=33.5;coverage=4;xdp2=4,0 GT:DP:RO:QR:AO:QA:GL 0/1:107:78:2566:29:706:-10,0,-10 0/1:26:19:535:7:195:-10,0,-10 0/1:48:32:1112:16:437:-10,0,-10 1 94861 . G T 35.0 . AB=0.4;ABP=3.87889;AC=1;AF=0.0294118;AN=34;AO=6;CIGAR=1X;TYPE=snp;mapq=37;coverage=1;xdp2=1,0 GT:DP:RO:QR:AO:QA:GL 0/0:56:53:1764:0:0:0,-10,-10 0/1:10:6:174:4:132:-10,0,-10 0/0:24:21:714:0:0:0,-6.32163,-10 1 94893 . A G 35.0 . AB=1;ABP=11.6962;AC=1;AF=0.0357143;AN=28;AO=15;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:68:68:2470:0:0:0,-10,-10 0/1:4:0:0:4:135:-10,-1.20412,0 0/0:27:25:880:2:23:0,-3.3975,-10 1 94991 . G A 683.9 . AB=0.351351;ABP=17.2129;AC=2;AF=0.111111;AN=18;AO=26;CIGAR=1X;TYPE=snp;mapq=40.1429;coverage=7;xdp2=3,4 GT:DP:RO:QR:AO:QA:GL 0/1:74:48:1608:26:918:-10,0,-10 .:.:.:.:.:.:. 0/0:26:26:868:0:0:0,-7.82678,-10 1 95006 . A T 1209.5 . AB=0.274611;ABP=88.1703;AC=16;AF=0.470588;AN=34;AO=71;CIGAR=1X;TYPE=snp;mapq=39;coverage=2;xdp2=1,1 GT:DP:RO:QR:AO:QA:GL 0/0:86:83:2850:3:106:0,-10,-10 0/1:4:0:0:4:152:-10,-1.20412,0 0/1:33:29:1025:4:128:-6.51795,0,-10 1 95011 . T G 674.6 . AB=0.47619;ABP=3.94093;AC=12;AF=0.352941;AN=34;AO=111;CIGAR=1X1M;TYPE=snp;mapq=21.6667;coverage=3;xdp2=2,1 GT:DP:RO:QR:AO:QA:GL 0/0:84:79:2791:3:19:0,-10,-10 0/1:10:3:49:6:64:-4.76644,0,-3.48501 0/0:34:29:1054:3:26:0,-3.75548,-10 1 95054 . G A 201.1 . AB=0.25;ABP=24.725;AC=1;AF=0.0294118;AN=34;AO=10;CIGAR=1X;TYPE=snp;mapq=28.6667;coverage=3;xdp2=1,2 GT:DP:RO:QR:AO:QA:GL 0/0:85:85:2938:0:0:0,-10,-10 0/0:16:16:558:0:0:0,-4.81648,-10 0/0:49:49:1618:0:0:0,-10,-10 1 95611 . G A 36.8 . AB=0.235294;ABP=13.3567;AC=1;AF=0.0294118;AN=34;AO=4;CIGAR=1X;TYPE=snp;mapq=20;coverage=3;xdp2=3,0 GT:DP:RO:QR:AO:QA:GL 0/0:17:17:620:0:0:0,-5.11751,-10 0/0:2:2:70:0:0:0,-0.60206,-6.65 0/0:7:7:252:0:0:0,-2.10721,-10 1 96594 . C T 953.0 . AB=0.355556;ABP=19.3205;AC=2;AF=0.111111;AN=18;AO=32;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:90:58:2040:32:1200:-10,0,-10 .:.:.:.:.:.:. 0/0:18:18:623:0:0:0,-5.41854,-10 1 97164 . A G 353.7 . AB=0;ABP=0;AC=12;AF=1;AN=12;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 1/1:3:0:0:3:102:-9.52,-0.90309,0 .:.:.:.:.:.:. 1/1:1:0:0:1:35:-3.5,-0.30103,0 1 97587 . G C 303.7 . AB=0.285714;ABP=19.7617;AC=1;AF=0.05;AN=20;AO=12;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/1:42:30:1120:12:451:-10,0,-10 0/0:1:1:40:0:0:0,-0.30103,-4 0/0:21:21:796:0:0:0,-6.32163,-10 1 97661 . T C 33.4 . AB=0.3;ABP=6.48466;AC=1;AF=0.0333333;AN=30;AO=5;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:19:18:629:1:41:0,-0.340816,-10 0/0:2:2:74:0:0:0,-0.60206,-7.03 0/0:8:8:292:0:0:0,-2.40824,-10 1 97937 . T A 12.3 . AB=0.428571;ABP=3.32051;AC=2;AF=0.0588235;AN=34;AO=5;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:26:26:899:0:0:0,-7.82678,-10 0/0:3:3:113:0:0:0,-0.90309,-10 0/0:7:7:248:0:0:0,-2.10721,-10 1 97953 . A G 1000.6 . AB=0.401709;ABP=12.8283;AC=13;AF=0.382353;AN=34;AO=48;CIGAR=1X;TYPE=snp;mapq=20.5;coverage=2;xdp2=2,0 GT:DP:RO:QR:AO:QA:GL 0/0:32:32:1102:0:0:0,-9.63296,-10 0/1:6:4:155:2:77:-6.68491,0,-10 0/0:10:10:355:0:0:0,-3.0103,-10 1 98683 . G A 610.5 . AB=0.282443;ABP=56.8661;AC=11;AF=0.34375;AN=32;AO=45;CIGAR=1X;TYPE=snp;AC_AFR=0;AC_AMR=0;AC_EAS=0 GT:DP:RO:QR:AO:QA:GL 0/0:73:71:2641:2:78:0,-10,-10 0/0:1:0:0:1:34:-3.4,-0.30103,0 0/1:33:29:1059:4:139:-7.53545,0,-10 1 98688 . G <DEL> 610.5 . CIEND=-4,2;SVLEN=10;AB=0.282443;ABP=56.8661;AC=11;AF=0.34375;AN=32;AO=45;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:73:71:2641:2:78:0,-10,-10 0/0:1:0:0:1:34:-3.4,-0.30103,0 0/1:33:29:1059:4:139:-7.53545,0,-10 2 98688 . G <DEL> 610.5 . CIEND=-4,2;SVLEN=10;AB=0.282443;ABP=56.8661;AC=11;AF=0.34375;AN=32;AO=45;CIGAR=1X;TYPE=snp GT:DP:RO:QR:AO:QA:GL 0/0:73:71:2641:2:78:0,-10,-10 0/0:1:0:0:1:34:-3.4,-0.30103,0 0/1:33:29:1059:4:139:-7.53545,0,-10