Mercurial > repos > iuc > gatk4_mutect2
comparison test-data/Mutect2-out5.vcf @ 0:f41a1e03538b draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/gatk4 commit f9d04b348a43a799ab1624d3a7b211aab55ae522"
| author | iuc |
|---|---|
| date | Wed, 30 Oct 2019 15:33:59 -0400 |
| parents | |
| children | fd2d6e035c3f |
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| -1:000000000000 | 0:f41a1e03538b |
|---|---|
| 1 ##fileformat=VCFv4.2 | |
| 2 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed"> | |
| 3 ##FORMAT=<ID=AF,Number=A,Type=Float,Description="Allele fractions of alternate alleles in the tumor"> | |
| 4 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)"> | |
| 5 ##FORMAT=<ID=F1R2,Number=R,Type=Integer,Description="Count of reads in F1R2 pair orientation supporting each allele"> | |
| 6 ##FORMAT=<ID=F2R1,Number=R,Type=Integer,Description="Count of reads in F2R1 pair orientation supporting each allele"> | |
| 7 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> | |
| 8 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> | |
| 9 ##FORMAT=<ID=PGT,Number=1,Type=String,Description="Physical phasing haplotype information, describing how the alternate alleles are phased in relation to one another"> | |
| 10 ##FORMAT=<ID=PID,Number=1,Type=String,Description="Physical phasing ID information, where each unique ID within a given sample (but not across samples) connects records within a phasing group"> | |
| 11 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification"> | |
| 12 ##FORMAT=<ID=PS,Number=1,Type=Integer,Description="Phasing set (typically the position of the first variant in the set)"> | |
| 13 ##FORMAT=<ID=SB,Number=4,Type=Integer,Description="Per-sample component statistics which comprise the Fisher's Exact Test to detect strand bias."> | |
| 14 ##GATKCommandLine=<ID=Mutect2,CommandLine="Mutect2 --tumor-sample SRR8525881 --bam-output debug.bam --output output.vcf --activity-profile-out activity-profile.tab --assembly-region-out assembly-region.tab --input input.bam --reference reference.fa --QUIET true --f1r2-median-mq 50 --f1r2-min-bq 20 --f1r2-max-depth 200 --genotype-pon-sites false --genotype-germline-sites false --af-of-alleles-not-in-resource -1.0 --mitochondria-mode false --tumor-lod-to-emit 3.0 --initial-tumor-lod 2.0 --pcr-snv-qual 40 --pcr-indel-qual 40 --max-population-af 0.01 --downsampling-stride 1 --callable-depth 10 --max-suspicious-reads-per-alignment-start 0 --normal-lod 2.2 --ignore-itr-artifacts false --gvcf-lod-band -2.5 --gvcf-lod-band -2.0 --gvcf-lod-band -1.5 --gvcf-lod-band -1.0 --gvcf-lod-band -0.5 --gvcf-lod-band 0.0 --gvcf-lod-band 0.5 --gvcf-lod-band 1.0 --minimum-allele-fraction 0.0 --independent-mates false --disable-adaptive-pruning false --dont-trim-active-regions false --max-extension 25 --padding-around-indels 150 --padding-around-snps 20 --kmer-size 10 --kmer-size 25 --dont-increase-kmer-sizes-for-cycles false --allow-non-unique-kmers-in-ref false --num-pruning-samples 1 --min-dangling-branch-length 4 --recover-all-dangling-branches false --max-num-haplotypes-in-population 128 --min-pruning 2 --adaptive-pruning-initial-error-rate 0.001 --pruning-lod-threshold 2.302585092994046 --max-unpruned-variants 100 --debug-assembly false --debug-graph-transformations false --capture-assembly-failure-bam false --error-correct-reads false --kmer-length-for-read-error-correction 25 --min-observations-for-kmer-to-be-solid 20 --likelihood-calculation-engine PairHMM --base-quality-score-threshold 18 --pair-hmm-gap-continuation-penalty 10 --pair-hmm-implementation FASTEST_AVAILABLE --pcr-indel-model CONSERVATIVE --phred-scaled-global-read-mismapping-rate 45 --native-pair-hmm-threads 4 --native-pair-hmm-use-double-precision false --bam-writer-type CALLED_HAPLOTYPES --dont-use-soft-clipped-bases false --min-base-quality-score 10 --smith-waterman JAVA --emit-ref-confidence NONE --max-mnp-distance 1 --force-call-filtered-alleles false --min-assembly-region-size 50 --max-assembly-region-size 300 --assembly-region-padding 100 --max-reads-per-alignment-start 50 --active-probability-threshold 0.002 --max-prob-propagation-distance 50 --force-active false --interval-set-rule UNION --interval-padding 0 --interval-exclusion-padding 0 --interval-merging-rule ALL --read-validation-stringency SILENT --seconds-between-progress-updates 10.0 --disable-sequence-dictionary-validation false --create-output-bam-index true --create-output-bam-md5 false --create-output-variant-index true --create-output-variant-md5 false --lenient false --add-output-sam-program-record true --add-output-vcf-command-line true --cloud-prefetch-buffer 40 --cloud-index-prefetch-buffer -1 --disable-bam-index-caching false --sites-only-vcf-output false --help false --version false --showHidden false --verbosity INFO --use-jdk-deflater false --use-jdk-inflater false --gcs-max-retries 20 --gcs-project-for-requester-pays --disable-tool-default-read-filters false --max-read-length 2147483647 --min-read-length 30 --minimum-mapping-quality 20 --disable-tool-default-annotations false --enable-all-annotations false",Version="4.1.4.0",Date="October 29, 2019 2:55:53 PM EDT"> | |
| 15 ##INFO=<ID=CONTQ,Number=1,Type=Float,Description="Phred-scaled qualities that alt allele are not due to contamination"> | |
| 16 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered"> | |
| 17 ##INFO=<ID=ECNT,Number=1,Type=Integer,Description="Number of events in this haplotype"> | |
| 18 ##INFO=<ID=GERMQ,Number=1,Type=Integer,Description="Phred-scaled quality that alt alleles are not germline variants"> | |
| 19 ##INFO=<ID=MBQ,Number=R,Type=Integer,Description="median base quality"> | |
| 20 ##INFO=<ID=MFRL,Number=R,Type=Integer,Description="median fragment length"> | |
| 21 ##INFO=<ID=MMQ,Number=R,Type=Integer,Description="median mapping quality"> | |
| 22 ##INFO=<ID=MPOS,Number=A,Type=Integer,Description="median distance from end of read"> | |
| 23 ##INFO=<ID=NALOD,Number=A,Type=Float,Description="Negative log 10 odds of artifact in normal with same allele fraction as tumor"> | |
| 24 ##INFO=<ID=NCount,Number=1,Type=Integer,Description="Count of N bases in the pileup"> | |
| 25 ##INFO=<ID=NLOD,Number=A,Type=Float,Description="Normal log 10 likelihood ratio of diploid het or hom alt genotypes"> | |
| 26 ##INFO=<ID=OCM,Number=1,Type=Integer,Description="Number of alt reads whose original alignment doesn't match the current contig."> | |
| 27 ##INFO=<ID=PON,Number=0,Type=Flag,Description="site found in panel of normals"> | |
| 28 ##INFO=<ID=POPAF,Number=A,Type=Float,Description="negative log 10 population allele frequencies of alt alleles"> | |
| 29 ##INFO=<ID=ROQ,Number=1,Type=Float,Description="Phred-scaled qualities that alt allele are not due to read orientation artifact"> | |
| 30 ##INFO=<ID=RPA,Number=.,Type=Integer,Description="Number of times tandem repeat unit is repeated, for each allele (including reference)"> | |
| 31 ##INFO=<ID=RU,Number=1,Type=String,Description="Tandem repeat unit (bases)"> | |
| 32 ##INFO=<ID=SEQQ,Number=1,Type=Integer,Description="Phred-scaled quality that alt alleles are not sequencing errors"> | |
| 33 ##INFO=<ID=STR,Number=0,Type=Flag,Description="Variant is a short tandem repeat"> | |
| 34 ##INFO=<ID=STRANDQ,Number=1,Type=Integer,Description="Phred-scaled quality of strand bias artifact"> | |
| 35 ##INFO=<ID=STRQ,Number=1,Type=Integer,Description="Phred-scaled quality that alt alleles in STRs are not polymerase slippage errors"> | |
| 36 ##INFO=<ID=TLOD,Number=A,Type=Float,Description="Log 10 likelihood ratio score of variant existing versus not existing"> | |
| 37 ##INFO=<ID=UNIQ_ALT_READ_COUNT,Number=1,Type=Integer,Description="Number of ALT reads with unique start and mate end positions at a variant site"> | |
| 38 ##MutectVersion=2.2 | |
| 39 ##contig=<ID=K03455,length=9719> | |
| 40 ##filtering_status=Warning: unfiltered Mutect 2 calls. Please run FilterMutectCalls to remove false positives. | |
| 41 ##source=Mutect2 | |
| 42 ##tumor_sample=SRR8525881 | |
| 43 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SRR8525881 | |
| 44 K03455 2097 . G A . . DP=14;ECNT=41;MBQ=0,20;MFRL=0,160;MMQ=60,60;MPOS=34;POPAF=7.30;TLOD=75.39 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:0,14:0.929:14:0,7:0,5:0,0,9,5 | |
| 45 K03455 2106 . T C . . DP=16;ECNT=41;MBQ=20,30;MFRL=160,90;MMQ=60,60;MPOS=24;POPAF=7.30;TLOD=12.26 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:12,4:0.266:16:6,1:6,1:8,4,2,2 | |
| 46 K03455 2110 . TA CA,CT . . DP=17;ECNT=41;MBQ=0,20,35;MFRL=0,159,161;MMQ=60,60,60;MPOS=42,2;POPAF=7.30,7.30;TLOD=55.54,10.69 GT:AD:AF:DP:F1R2:F2R1:SB 0/1/2:0,13,4:0.754,0.187:17:0,6,1:0,7,3:0,0,11,6 | |
| 47 K03455 2118 . A G . . DP=17;ECNT=41;MBQ=32,20;MFRL=90,197;MMQ=60,60;MPOS=55;POPAF=7.30;TLOD=30.61 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:5,10:0.715:15:1,4:4,5:3,2,7,3 | |
| 48 K03455 2130 . T C . . DP=17;ECNT=41;MBQ=20,37;MFRL=159,161;MMQ=60,60;MPOS=22;POPAF=7.30;TLOD=10.45 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:13,4:0.199:17:4,1:8,3:8,5,3,1 | |
| 49 K03455 2136 . T C . . DP=17;ECNT=41;MBQ=20,38;MFRL=159,161;MMQ=60,60;MPOS=28;POPAF=7.30;TLOD=10.45 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:13,4:0.199:17:4,1:9,2:8,5,3,1 | |
| 50 K03455 2155 . A T . . DP=19;ECNT=41;MBQ=39,20;MFRL=90,234;MMQ=60,60;MPOS=56;POPAF=7.30;TLOD=39.43 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:5,14:0.777:19:1,5:4,6:3,2,10,4 | |
| 51 K03455 2169 . A G . . DP=22;ECNT=41;MBQ=0,35;MFRL=0,233;MMQ=60,60;MPOS=32;POPAF=7.30;TLOD=100.81 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:0,22:0.955:22:0,9:0,12:0,0,16,6 | |
| 52 K03455 2183 . C T . . DP=27;ECNT=41;MBQ=0,33;MFRL=0,233;MMQ=60,60;MPOS=28;POPAF=7.30;TLOD=129.24 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:0,27:0.962:27:0,9:0,13:0,0,18,9 | |
| 53 K03455 2189 . TA AA,AG . . DP=29;ECNT=41;MBQ=0,36,20;MFRL=0,232,265;MMQ=60,60,60;MPOS=25,22;POPAF=7.30,7.30;TLOD=46.72,54.99 GT:AD:AF:DP:F1R2:F2R1:SB 0/1/2:0,13,14:0.424,0.539:27:0,6,5:0,6,5:0,0,18,9 | |
| 54 K03455 2195 . C G,T . . DP=29;ECNT=41;MBQ=37,30,35;MFRL=232,265,245;MMQ=60,60,60;MPOS=19,23;POPAF=7.30,7.30;TLOD=41.44,16.79 GT:AD:AF:DP:F1R2:F2R1:SB 0/1/2:9,14,6:0.500,0.250:29:3,8,3:5,6,3:5,4,14,6 | |
| 55 K03455 2197 . A G . . DP=29;ECNT=41;MBQ=31,37;MFRL=257,232;MMQ=60,60;MPOS=10;POPAF=7.30;TLOD=29.34 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:20,9:0.259:29:9,3:7,5:14,6,5,4 | |
| 56 K03455 2200 . ACTC A . . DP=30;ECNT=41;MBQ=31,36;MFRL=265,232;MMQ=60,60;MPOS=17;POPAF=7.30;TLOD=13.22 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:23,5:0.153:28:10,3:6,2:0|1:2200_ACTC_A:2200:15,8,3,2 | |
| 57 K03455 2202 . T C . . DP=30;ECNT=41;MBQ=35,35;MFRL=265,182;MMQ=60,60;MPOS=12;POPAF=7.30;TLOD=5.58 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:21,4:0.166:25:9,1:7,1:0|1:2202_T_C:2202:14,7,2,2 | |
| 58 K03455 2205 . C A . . DP=30;ECNT=41;MBQ=36,26;MFRL=254,286;MMQ=60,60;MPOS=15;POPAF=7.30;TLOD=5.06 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:28,2:0.107:30:13,1:10,0:0|1:2202_T_C:2202:19,9,1,1 | |
| 59 K03455 2213 . A G . . DP=31;ECNT=41;MBQ=38,37;MFRL=232,265;MMQ=60,60;MPOS=23;POPAF=7.30;TLOD=102.83 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:7,24:0.793:31:4,11:2,8:4,3,17,7 | |
| 60 K03455 2214 . G A . . DP=28;ECNT=41;MBQ=33,26;MFRL=254,286;MMQ=60,60;MPOS=24;POPAF=7.30;TLOD=5.06 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:26,2:0.107:28:12,1:10,0:0|1:2214_G_A:2214:17,9,1,1 | |
| 61 K03455 2221 . C A . . DP=35;ECNT=41;MBQ=34,35;MFRL=251,232;MMQ=60,60;MPOS=36;POPAF=7.30;TLOD=12.67 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:30,5:0.114:35:16,1:11,2:0|1:2200_ACTC_A:2200:22,8,3,2 | |
| 62 K03455 2223 . G A . . DP=35;ECNT=41;MBQ=37,34;MFRL=251,211;MMQ=60,60;MPOS=33;POPAF=7.30;TLOD=47.57 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:20,14:0.446:34:12,7:7,6:17,3,7,7 | |
| 63 K03455 2224 . AT GG,CT . . DP=34;ECNT=41;MBQ=34,33,38;MFRL=265,212,253;MMQ=60,60,60;MPOS=37,18;POPAF=7.30,7.30;TLOD=13.11,33.64 GT:AD:AF:DP:F1R2:F2R1:SB 0/1/2:19,5,10:0.118,0.324:34:9,3,7:8,2,3:11,8,13,2 | |
| 64 K03455 2225 . T G . . DP=34;ECNT=41;MBQ=37,38;MFRL=253,286;MMQ=60,60;MPOS=35;POPAF=7.30;TLOD=5.10 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:27,2:0.099:29:16,1:11,1:0|1:2214_G_A:2214:20,7,1,1 | |
| 65 K03455 2226 . A G . . DP=34;ECNT=41;MBQ=20,37;MFRL=232,253;MMQ=60,60;MPOS=20;POPAF=7.30;TLOD=114.56 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:7,27:0.818:34:4,16:2,9:0|1:2226_A_G:2226:4,3,20,7 | |
| 66 K03455 2230 . A C . . DP=36;ECNT=41;MBQ=28,37;MFRL=232,253;MMQ=60,60;MPOS=24;POPAF=7.30;TLOD=118.22 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:8,28:0.800:36:3,15:3,11:0|1:2226_A_G:2226:4,4,21,7 | |
| 67 K03455 2234 . A G . . DP=42;ECNT=41;MBQ=29,37;MFRL=232,245;MMQ=60,60;MPOS=15;POPAF=7.30;TLOD=144.85 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:8,34:0.821:42:2,20:3,11:0|1:2226_A_G:2226:4,4,24,10 | |
| 68 K03455 2235 . AC GA . . DP=42;ECNT=41;MBQ=36,34;MFRL=248,212;MMQ=60,60;MPOS=48;POPAF=7.30;TLOD=12.53 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:37,5:0.103:42:22,2:11,2:0|1:2200_ACTC_A:2200:25,12,3,2 | |
| 69 K03455 2236 . CTG C,GTG . . DP=42;ECNT=41;MBQ=38,35,38;MFRL=251,240,286;MMQ=60,60,60;MPOS=16,46;POPAF=7.30,7.30;TLOD=61.99,5.13 GT:AD:AF:DP:F1R2:F2R1:SB 0/1/2:14,20,2:0.528,0.082:36:8,12,1:5,8,1:12,2,13,9 | |
| 70 K03455 2239 . TA CC . . DP=45;ECNT=41;MBQ=36,38;MFRL=232,251;MMQ=60,60;MPOS=30;POPAF=7.30;TLOD=48.80 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:29,14:0.350:43:15,9:10,4:17,12,12,2 | |
| 71 K03455 2240 . A ACC . . DP=45;ECNT=41;MBQ=37,34;MFRL=232,211;MMQ=60,60;MPOS=-2147483648;POPAF=7.30;TLOD=61.64 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:9,24:0.731:33:4,13:4,9:5,4,14,10 | |
| 72 K03455 2248 . A G . . DP=46;ECNT=41;MBQ=20,38;MFRL=197,247;MMQ=60,60;MPOS=28;POPAF=7.30;TLOD=185.50 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 1|0:6,40:0.884:46:3,21:3,16:1|0:2200_ACTC_A:2200:4,2,27,13 | |
| 73 K03455 2250 . T C . . DP=46;ECNT=41;MBQ=38,37;MFRL=247,197;MMQ=60,60;MPOS=42;POPAF=7.30;TLOD=15.87 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:40,6:0.116:46:23,3:16,3:0|1:2200_ACTC_A:2200:27,13,4,2 | |
| 74 K03455 2258 . GG AA . . DP=48;ECNT=41;MBQ=38,39;MFRL=241,235;MMQ=60,60;MPOS=37;POPAF=7.30;TLOD=163.72 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:7,41:0.843:48:3,23:3,17:0|1:2258_GG_AA:2258:6,1,27,14 | |
| 75 K03455 2259 . G A . . DP=48;ECNT=41;MBQ=0,37;MFRL=0,242;MMQ=60,60;MPOS=37;POPAF=7.30;TLOD=17.05 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 1|0:0,14:0.919:14:0,5:0,8:1|0:2258_GG_AA:2258:0,0,10,4 | |
| 76 K03455 2282 . C T . . DP=62;ECNT=41;MBQ=35,20;MFRL=241,182;MMQ=60,60;MPOS=54;POPAF=7.30;TLOD=12.25 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:57,5:0.075:62:24,2:24,2:32,25,3,2 | |
| 77 K03455 2285 . C T . . DP=65;ECNT=41;MBQ=28,38;MFRL=239,209;MMQ=60,60;MPOS=50;POPAF=7.30;TLOD=30.08 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:54,10:0.164:64:24,4:21,4:30,24,7,3 | |
| 78 K03455 2287 . CA AT . . DP=68;ECNT=41;MBQ=33,37;MFRL=232,285;MMQ=60,60;MPOS=41;POPAF=7.30;TLOD=17.29 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:61,7:0.128:68:26,1:25,2:33,28,4,3 | |
| 79 K03455 2300 . G A . . DP=67;ECNT=41;MBQ=31,32;MFRL=219,236;MMQ=60,60;MPOS=36;POPAF=7.30;TLOD=209.86 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:16,49:0.754:65:5,20:7,22:8,8,26,23 | |
| 80 K03455 2303 . GCA G . . DP=65;ECNT=41;MBQ=36,31;MFRL=221,241;MMQ=60,60;MPOS=38;POPAF=7.30;TLOD=170.03 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:19,45:0.695:64:4,18:11,20:9,10,25,20 | |
| 81 K03455 2304 . CAA GTG . . DP=65;ECNT=41;MBQ=33,20;MFRL=219,235;MMQ=60,60;MPOS=36;POPAF=7.30;TLOD=3.43 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:16,19:0.471:35:6,4:9,12:8,8,10,9 | |
| 82 K03455 2306 . A ATG,G . . DP=64;ECNT=41;MBQ=20,32,33;MFRL=188,239,274;MMQ=60,60,60;MPOS=39,19;POPAF=7.30,7.30;TLOD=174.74,25.23 GT:AD:AF:DP:F1R2:F2R1:SB 0/1/2:7,48,9:0.738,0.173:64:4,20,2:3,23,5:4,3,30,27 | |
| 83 K03455 2315 . A G . . DP=63;ECNT=41;MBQ=37,38;MFRL=219,244;MMQ=60,60;MPOS=50;POPAF=7.30;TLOD=74.04 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:42,20:0.358:62:18,6:17,14:0|1:2315_A_G:2315:21,21,11,9 | |
| 84 K03455 2321 . A C . . DP=60;ECNT=41;MBQ=33,37;MFRL=212,244;MMQ=60,60;MPOS=45;POPAF=7.30;TLOD=74.63 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:39,20:0.377:59:18,6:18,14:0|1:2315_A_G:2315:19,20,11,9 | |
| 85 K03455 2349 . T C . . DP=53;ECNT=9;MBQ=34,35;MFRL=234,259;MMQ=60,60;MPOS=54;POPAF=7.30;TLOD=21.63 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:46,7:0.160:53:18,3:22,4:24,22,3,4 | |
| 86 K03455 2360 . G A . . DP=48;ECNT=9;MBQ=37,34;MFRL=235,232;MMQ=60,60;MPOS=43;POPAF=7.30;TLOD=20.61 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:41,7:0.175:48:16,3:22,3:22,19,3,4 | |
| 87 K03455 2362 . G A . . DP=48;ECNT=9;MBQ=0,37;MFRL=0,234;MMQ=60,60;MPOS=23;POPAF=7.30;TLOD=178.56 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:0,46:0.978:46:0,20:0,24:0,0,23,23 | |
| 88 K03455 2372 . A G . . DP=43;ECNT=9;MBQ=37,36;MFRL=237,227;MMQ=60,60;MPOS=31;POPAF=7.30;TLOD=22.64 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:36,7:0.192:43:8,2:17,4:19,17,3,4 | |
| 89 K03455 2374 . G A . . DP=34;ECNT=9;MBQ=37,37;MFRL=227,255;MMQ=60,60;MPOS=9;POPAF=7.30;TLOD=4.41 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:31,3:0.102:34:8,0:18,2:11,20,2,1 | |
| 90 K03455 2423 . A G . . DP=14;ECNT=9;MBQ=34,36;MFRL=248,221;MMQ=60,60;MPOS=10;POPAF=7.30;TLOD=5.14 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:12,2:0.187:14:3,0:8,2:0,12,0,2 | |
| 91 K03455 2436 . A G . . DP=4;ECNT=9;MBQ=16,33;MFRL=255,255;MMQ=60,60;MPOS=4;POPAF=7.30;TLOD=12.21 GT:AD:AF:DP:F1R2:F2R1:SB 0/1:1,3:0.671:4:0,0:0,3:0,1,0,3 | |
| 92 K03455 2438 . A G . . DP=4;ECNT=9;MBQ=24,33;MFRL=255,255;MMQ=60,60;MPOS=3;POPAF=7.30;TLOD=7.53 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:2,2:0.502:4:0,0:1,2:0|1:2438_A_G:2438:0,2,0,2 | |
| 93 K03455 2440 . T C . . DP=4;ECNT=9;MBQ=0,31;MFRL=255,255;MMQ=60,60;MPOS=1;POPAF=7.30;TLOD=7.53 GT:AD:AF:DP:F1R2:F2R1:PGT:PID:PS:SB 0|1:2,2:0.502:4:0,0:0,2:0|1:2438_A_G:2438:0,2,0,2 |