Mercurial > repos > iuc > gatk4_mutect2
view test-data/Mutect2-out4.vcf @ 8:55e8a08e39e1 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/main/tools/gatk4 commit 30797e29f13902f17652cf35585e52b363c28a31
| author | iuc |
|---|---|
| date | Tue, 03 Feb 2026 18:50:29 +0000 |
| parents | d2c0c2698f58 |
| children |
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##fileformat=VCFv4.2 ##FORMAT=<ID=AD,Number=R,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed"> ##FORMAT=<ID=AF,Number=A,Type=Float,Description="Allele fractions of alternate alleles in the tumor"> ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)"> ##FORMAT=<ID=F1R2,Number=R,Type=Integer,Description="Count of reads in F1R2 pair orientation supporting each allele"> ##FORMAT=<ID=F2R1,Number=R,Type=Integer,Description="Count of reads in F2R1 pair orientation supporting each allele"> ##FORMAT=<ID=FAD,Number=R,Type=Integer,Description="Count of fragments supporting each allele."> ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> ##FORMAT=<ID=PGT,Number=1,Type=String,Description="Physical phasing haplotype information, describing how the alternate alleles are phased in relation to one another; will always be heterozygous and is not intended to describe called alleles"> ##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"> ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification"> ##FORMAT=<ID=PS,Number=1,Type=Integer,Description="Phasing set (typically the position of the first variant in the set)"> ##FORMAT=<ID=SB,Number=4,Type=Integer,Description="Per-sample component statistics which comprise the Fisher's Exact Test to detect strand bias."> ##GATKCommandLine=<ID=Mutect2,CommandLine="Mutect2 --tumor-sample SRR8525881 --output output.vcf --input tumor.bam --reference reference.fa --QUIET true --f1r2-median-mq 50 --f1r2-min-bq 20 --f1r2-max-depth 200 --flow-likelihood-parallel-threads 0 --flow-likelihood-optimized-comp false --trim-to-haplotype true --exact-matching false --flow-use-t0-tag false --flow-remove-non-single-base-pair-indels false --flow-remove-one-zero-probs false --flow-quantization-bins 121 --flow-fill-empty-bins-value 0.001 --flow-symmetric-indel-probs false --flow-report-insertion-or-deletion false --flow-disallow-probs-larger-than-call false --flow-lump-probs false --flow-retain-max-n-probs-base-format false --flow-probability-scaling-factor 10 --flow-order-cycle-length 4 --keep-boundary-flows false --genotype-pon-sites false --genotype-germline-sites false --genotype-germline-sites-fraction 1.0 --af-of-alleles-not-in-resource -1.0 --mitochondria-mode false --permutect-ref-downsample 10 --permutect-alt-downsample 20 --permutect-non-artifact-ratio 1 --permutect-dataset-mode ILLUMINA --tumor-lod-to-emit 3.0 --initial-tumor-lod 2.0 --pcr-snv-qual 40 --pcr-indel-qual 40 --base-qual-correction-factor 5 --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 --flow-mode NONE --disable-adaptive-pruning false --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 --pruning-seeding-lod-threshold 9.210340371976184 --max-unpruned-variants 100 --linked-de-bruijn-graph false --disable-artificial-haplotype-recovery false --enable-legacy-graph-cycle-detection false --debug-assembly false --debug-graph-transformations false --capture-assembly-failure-bam false --num-matching-bases-in-dangling-end-to-recover -1 --error-correction-log-odds -Infinity --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 --dragstr-het-hom-ratio 2 --dont-use-dragstr-pair-hmm-scores false --pair-hmm-gap-continuation-penalty 10 --expected-mismatch-rate-for-read-disqualification 0.02 --pair-hmm-implementation FASTEST_AVAILABLE --pcr-indel-model CONSERVATIVE --phred-scaled-global-read-mismapping-rate 45 --disable-symmetric-hmm-normalizing false --disable-cap-base-qualities-to-map-quality false --enable-dynamic-read-disqualification-for-genotyping false --dynamic-read-disqualification-threshold 1.0 --native-pair-hmm-threads 4 --native-pair-hmm-use-double-precision false --flow-hmm-engine-min-indel-adjust 6 --flow-hmm-engine-flat-insertion-penatly 45 --flow-hmm-engine-flat-deletion-penatly 45 --pileup-detection false --use-pdhmm false --use-pdhmm-overlap-optimization false --make-determined-haps-from-pd-code false --print-pileupcalling-status false --fallback-gga-if-pdhmm-fails true --pileup-detection-enable-indel-pileup-calling false --pileup-detection-active-region-phred-threshold 0.0 --num-artificial-haplotypes-to-add-per-allele 5 --artifical-haplotype-filtering-kmer-size 10 --pileup-detection-snp-alt-threshold 0.1 --pileup-detection-indel-alt-threshold 0.1 --pileup-detection-absolute-alt-depth 0.0 --pileup-detection-snp-adjacent-to-assembled-indel-range 5 --pileup-detection-snp-basequality-filter 12 --pileup-detection-bad-read-tolerance 0.0 --pileup-detection-proper-pair-read-badness true --pileup-detection-edit-distance-read-badness-threshold 0.08 --pileup-detection-chimeric-read-badness true --pileup-detection-template-mean-badness-threshold 0.0 --pileup-detection-template-std-badness-threshold 0.0 --pileup-detection-filter-assembly-alt-bad-read-tolerance 0.0 --pileup-detection-edit-distance-read-badness-for-assembly-filtering-threshold 0.12 --bam-writer-type CALLED_HAPLOTYPES --dont-use-soft-clipped-bases false --override-fragment-softclip-check false --min-base-quality-score 10 --smith-waterman FASTEST_AVAILABLE --emit-ref-confidence NONE --max-mnp-distance 1 --force-call-filtered-alleles false --reference-model-deletion-quality 30 --soft-clip-low-quality-ends false --allele-informative-reads-overlap-margin 2 --smith-waterman-dangling-end-match-value 25 --smith-waterman-dangling-end-mismatch-penalty -50 --smith-waterman-dangling-end-gap-open-penalty -110 --smith-waterman-dangling-end-gap-extend-penalty -6 --smith-waterman-haplotype-to-reference-match-value 200 --smith-waterman-haplotype-to-reference-mismatch-penalty -150 --smith-waterman-haplotype-to-reference-gap-open-penalty -260 --smith-waterman-haplotype-to-reference-gap-extend-penalty -11 --smith-waterman-read-to-haplotype-match-value 10 --smith-waterman-read-to-haplotype-mismatch-penalty -15 --smith-waterman-read-to-haplotype-gap-open-penalty -30 --smith-waterman-read-to-haplotype-gap-extend-penalty -5 --flow-assembly-collapse-hmer-size 0 --flow-assembly-collapse-partial-mode false --flow-filter-alleles false --flow-filter-alleles-qual-threshold 30.0 --flow-filter-alleles-sor-threshold 3.0 --flow-filter-lone-alleles false --flow-filter-alleles-debug-graphs false --min-assembly-region-size 50 --max-assembly-region-size 300 --active-probability-threshold 0.002 --max-prob-propagation-distance 50 --force-active false --assembly-region-padding 100 --padding-around-indels 75 --padding-around-snps 20 --padding-around-strs 75 --max-extension-into-assembly-region-padding-legacy 25 --max-reads-per-alignment-start 50 --enable-legacy-assembly-region-trimming 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 --max-variants-per-shard 0 --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="4.6.2.0",Date="February 2, 2026, 12:29:59?AM GMT"> ##INFO=<ID=AS_SB_TABLE,Number=1,Type=String,Description="Allele-specific forward/reverse read counts for strand bias tests. Includes the reference and alleles separated by |."> ##INFO=<ID=AS_UNIQ_ALT_READ_COUNT,Number=A,Type=Integer,Description="Number of reads with unique start and mate end positions for each alt at a variant site"> ##INFO=<ID=CONTQ,Number=1,Type=Float,Description="Phred-scaled qualities that alt allele are not due to contamination"> ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered"> ##INFO=<ID=ECNT,Number=1,Type=Integer,Description="Number of potential somatic events in the assembly region"> ##INFO=<ID=ECNTH,Number=A,Type=Integer,Description="Number of somatic events in best supporting haplotype for each alt allele"> ##INFO=<ID=GERMQ,Number=1,Type=Integer,Description="Phred-scaled quality that alt alleles are not germline variants"> ##INFO=<ID=MBQ,Number=R,Type=Integer,Description="median base quality by allele"> ##INFO=<ID=MFRL,Number=R,Type=Integer,Description="median fragment length by allele"> ##INFO=<ID=MMQ,Number=R,Type=Integer,Description="median mapping quality by allele"> ##INFO=<ID=MPOS,Number=A,Type=Integer,Description="median distance from end of read"> ##INFO=<ID=NALOD,Number=A,Type=Float,Description="Log 10 odds of artifact in normal with same allele fraction as tumor"> ##INFO=<ID=NCount,Number=1,Type=Integer,Description="Count of N bases in the pileup"> ##INFO=<ID=NLOD,Number=A,Type=Float,Description="Normal log 10 likelihood ratio of diploid het or hom alt genotypes"> ##INFO=<ID=OCM,Number=1,Type=Integer,Description="Number of alt reads whose original alignment doesn't match the current contig."> ##INFO=<ID=PON,Number=0,Type=Flag,Description="site found in panel of normals"> ##INFO=<ID=POPAF,Number=A,Type=Float,Description="negative log 10 population allele frequencies of alt alleles"> ##INFO=<ID=ROQ,Number=1,Type=Float,Description="Phred-scaled qualities that alt allele are not due to read orientation artifact"> ##INFO=<ID=RPA,Number=R,Type=Integer,Description="Number of times tandem repeat unit is repeated, for each allele (including reference)"> ##INFO=<ID=RU,Number=1,Type=String,Description="Tandem repeat unit (bases)"> ##INFO=<ID=SEQQ,Number=1,Type=Integer,Description="Phred-scaled quality that alt alleles are not sequencing errors"> ##INFO=<ID=STR,Number=0,Type=Flag,Description="Variant is a short tandem repeat"> ##INFO=<ID=STRANDQ,Number=1,Type=Integer,Description="Phred-scaled quality of strand bias artifact"> ##INFO=<ID=STRQ,Number=1,Type=Integer,Description="Phred-scaled quality that alt alleles in STRs are not polymerase slippage errors"> ##INFO=<ID=TLOD,Number=A,Type=Float,Description="Log 10 likelihood ratio score of variant existing versus not existing"> ##MutectVersion=2.2 ##contig=<ID=K03455,length=9719> ##filtering_status=Warning: unfiltered Mutect 2 calls. Please run FilterMutectCalls to remove false positives. ##source=Mutect2 ##tumor_sample=SRR8525881 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT SRR8525881 K03455 6822 . GT AC . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=1;ECNTH=1;MBQ=0,20;MFRL=0,117;MMQ=60,60;MPOS=79;POPAF=7.30;TLOD=8.52 GT:AD:AF:DP:F1R2:F2R1:FAD:SB 0/1:0,2:0.750:2:0,0:0,2:0,2:0,0,0,2 K03455 6902 . A C . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=65;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6905 . A G . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=62;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6911 . T C . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=56;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6917 . G A . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=50;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6920 . G A . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=47;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6923 . C T . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=44;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6931 . C A . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=36;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 6936 . C G . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=13;MBQ=0,39;MFRL=0,162;MMQ=60,60;MPOS=31;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:6902_A_C:6902:0,0,0,1 K03455 7141 . GAATCC G . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=5;MBQ=0,0;MFRL=0,310;MMQ=60,60;MPOS=50;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,0:0,1:0|1:7141_GAATCC_G:7141:0,0,0,1 K03455 7149 . A G . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=5;MBQ=0,15;MFRL=0,310;MMQ=60,60;MPOS=7;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,0:0,1:0|1:7141_GAATCC_G:7141:0,0,0,1 K03455 7151 . C G . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=5;MBQ=0,38;MFRL=0,310;MMQ=60,60;MPOS=9;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,1:0,0:0,1:0|1:7141_GAATCC_G:7141:0,0,0,1 K03455 7154 . G T . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=5;MBQ=0,24;MFRL=0,310;MMQ=60,60;MPOS=12;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,1:0,0:0,1:0|1:7141_GAATCC_G:7141:0,0,0,1 K03455 7156 . G T . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=13;ECNTH=5;MBQ=0,25;MFRL=0,310;MMQ=60,60;MPOS=14;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,1:0,0:0,1:0|1:7141_GAATCC_G:7141:0,0,0,1 K03455 7372 . T C . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=2;ECNTH=2;MBQ=0,34;MFRL=0,451;MMQ=60,60;MPOS=25;POPAF=7.30;TLOD=3.58 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7372_T_C:7372:0,0,0,1 K03455 7392 . C T . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=2;ECNTH=2;MBQ=0,32;MFRL=0,451;MMQ=60,60;MPOS=5;POPAF=7.30;TLOD=4.20 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7372_T_C:7372:0,0,0,1 K03455 7441 . A ACCT . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,486;MMQ=60,60;MPOS=77;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7443 . A AGTG . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,486;MMQ=60,60;MPOS=82;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7449 . G A . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,486;MMQ=60,60;MPOS=91;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7452 . GGA G . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,486;MMQ=60,60;MPOS=94;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7455 . A ATG . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,486;MMQ=60,60;MPOS=95;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7457 . TGA T . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,486;MMQ=60,60;MPOS=99;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7460 . CA C . . AS_SB_TABLE=0,0|0,0;DP=1;ECNT=23;ECNTH=12;MBQ=0,37;MFRL=0,486;MMQ=60,60;MPOS=100;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,1:0.667:1:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,1 K03455 7468 . CC TA . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=107;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,2 K03455 7478 . C T . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=117;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,2 K03455 7491 . A T . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=118;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,2 K03455 7494 . A G . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=115;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,2 K03455 7508 . GA AG . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=12;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=101;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7441_A_ACCT:7441:0,0,0,2 K03455 7541 . C CGA . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=68;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7542 . AGT A . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=65;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7548 . C A . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=61;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7555 . GA AT . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=54;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7560 . TC GT . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,38;MFRL=0,586;MMQ=60,50;MPOS=49;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7568 . T C . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=41;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7571 . T C . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=38;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7581 . C A . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=28;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7584 . T C . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,39;MFRL=0,586;MMQ=60,50;MPOS=25;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7603 . A AGGG . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,37;MFRL=0,586;MMQ=60,50;MPOS=6;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2 K03455 7604 . T G . . AS_SB_TABLE=0,0|0,0;DP=2;ECNT=23;ECNTH=23;MBQ=0,33;MFRL=0,586;MMQ=60,50;MPOS=2;POPAF=7.30;TLOD=8.70 GT:AD:AF:DP:F1R2:F2R1:FAD:PGT:PID:PS:SB 0|1:0,2:0.667:2:0,0:0,1:0,1:0|1:7541_C_CGA:7541:0,0,0,2