Mercurial > repos > iuc > gvcftools_extract_variants
comparison test-data/nonvariants_output1.vcf @ 0:bf8841b0a6b0 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gvcftools commit a35519a8cc09ea0a6e6ac5f57ff36fd738e5adb7
| author | iuc |
|---|---|
| date | Mon, 20 Feb 2017 06:35:42 -0500 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:bf8841b0a6b0 |
|---|---|
| 1 ##fileformat=VCFv4.1 | |
| 2 ##ALT=<ID=NON_REF,Description="Represents any possible alternative allele at this location"> | |
| 3 ##FILTER=<ID=LowQual,Description="Low quality"> | |
| 4 ##FORMAT=<ID=AD,Number=.,Type=Integer,Description="Allelic depths for the ref and alt alleles in the order listed"> | |
| 5 ##FORMAT=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth (reads with MQ=255 or with bad mates are filtered)"> | |
| 6 ##FORMAT=<ID=GQ,Number=1,Type=Integer,Description="Genotype Quality"> | |
| 7 ##FORMAT=<ID=GT,Number=1,Type=String,Description="Genotype"> | |
| 8 ##FORMAT=<ID=MIN_DP,Number=1,Type=Integer,Description="Minimum DP observed within the GVCF block"> | |
| 9 ##FORMAT=<ID=PL,Number=G,Type=Integer,Description="Normalized, Phred-scaled likelihoods for genotypes as defined in the VCF specification"> | |
| 10 ##FORMAT=<ID=SB,Number=4,Type=Integer,Description="Per-sample component statistics which comprise the Fisher's Exact Test to detect strand bias."> | |
| 11 ##GATKCommandLine=<ID=HaplotypeCaller,Version=3.3-0-g37228af,Date="Sun Jun 07 11:04:37 SAST 2015",Epoch=1433667877260,CommandLineOptions="analysis_type=HaplotypeCaller input_file=[./R_2117_866#L5-_.R.bam.sorted_dedup.bam_realigned.bam] showFullBamList=false read_buffer_size=null phone_home=AWS gatk_key=null tag=NA read_filter=[] intervals=null excludeIntervals=null interval_set_rule=UNION interval_merging=ALL interval_padding=0 reference_sequence=reference_H37Rv.fasta nonDeterministicRandomSeed=false disableDithering=false maxRuntime=-1 maxRuntimeUnits=MINUTES downsampling_type=BY_SAMPLE downsample_to_fraction=null downsample_to_coverage=250 baq=OFF baqGapOpenPenalty=40.0 refactor_NDN_cigar_string=false fix_misencoded_quality_scores=false allow_potentially_misencoded_quality_scores=false useOriginalQualities=false defaultBaseQualities=-1 performanceLog=null BQSR=null quantize_quals=0 disable_indel_quals=false emit_original_quals=false preserve_qscores_less_than=6 globalQScorePrior=-1.0 validation_strictness=SILENT remove_program_records=false keep_program_records=false sample_rename_mapping_file=null unsafe=null disable_auto_index_creation_and_locking_when_reading_rods=false no_cmdline_in_header=false sites_only=false never_trim_vcf_format_field=false bcf=false bam_compression=null simplifyBAM=false disable_bam_indexing=false generate_md5=false num_threads=1 num_cpu_threads_per_data_thread=4 num_io_threads=0 monitorThreadEfficiency=false num_bam_file_handles=null read_group_black_list=null pedigree=[] pedigreeString=[] pedigreeValidationType=STRICT allow_intervals_with_unindexed_bam=false generateShadowBCF=false variant_index_type=LINEAR variant_index_parameter=128000 logging_level=INFO log_to_file=null help=false version=false likelihoodCalculationEngine=PairHMM heterogeneousKmerSizeResolution=COMBO_MIN graphOutput=null bamOutput=null bamWriterType=CALLED_HAPLOTYPES disableOptimizations=false dbsnp=(RodBinding name= source=UNBOUND) dontTrimActiveRegions=false maxDiscARExtension=25 maxGGAARExtension=300 paddingAroundIndels=150 paddingAroundSNPs=20 comp=[] annotation=[ClippingRankSumTest, DepthPerSampleHC, StrandBiasBySample] excludeAnnotation=[SpanningDeletions, TandemRepeatAnnotator, ChromosomeCounts, FisherStrand, StrandOddsRatio, QualByDepth] debug=false useFilteredReadsForAnnotations=false emitRefConfidence=GVCF annotateNDA=false heterozygosity=0.001 indel_heterozygosity=1.25E-4 standard_min_confidence_threshold_for_calling=-0.0 standard_min_confidence_threshold_for_emitting=-0.0 max_alternate_alleles=6 input_prior=[] sample_ploidy=1 genotyping_mode=DISCOVERY alleles=(RodBinding name= source=UNBOUND) contamination_fraction_to_filter=0.0 contamination_fraction_per_sample_file=null p_nonref_model=null exactcallslog=null output_mode=EMIT_VARIANTS_ONLY allSitePLs=true sample_name=null kmerSize=[10, 25] dontIncreaseKmerSizesForCycles=false allowNonUniqueKmersInRef=false numPruningSamples=1 recoverDanglingHeads=false doNotRecoverDanglingBranches=false minDanglingBranchLength=4 consensus=false GVCFGQBands=[1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48, 49, 50, 51, 52, 53, 54, 55, 56, 57, 58, 59, 60, 70, 80, 90, 99] indelSizeToEliminateInRefModel=10 min_base_quality_score=10 minPruning=2 gcpHMM=10 includeUmappedReads=false useAllelesTrigger=false phredScaledGlobalReadMismappingRate=45 maxNumHaplotypesInPopulation=128 mergeVariantsViaLD=false doNotRunPhysicalPhasing=true pair_hmm_implementation=VECTOR_LOGLESS_CACHING keepRG=null justDetermineActiveRegions=false dontGenotype=false errorCorrectKmers=false debugGraphTransformations=false dontUseSoftClippedBases=false captureAssemblyFailureBAM=false allowCyclesInKmerGraphToGeneratePaths=false noFpga=false errorCorrectReads=false kmerLengthForReadErrorCorrection=25 minObservationsForKmerToBeSolid=20 pcr_indel_model=CONSERVATIVE maxReadsInRegionPerSample=1000 minReadsPerAlignmentStart=5 activityProfileOut=null activeRegionOut=null activeRegionIn=null activeRegionExtension=null forceActive=false activeRegionMaxSize=null bandPassSigma=null maxProbPropagationDistance=50 activeProbabilityThreshold=0.002 min_mapping_quality_score=20 filter_reads_with_N_cigar=false filter_mismatching_base_and_quals=false filter_bases_not_stored=false"> | |
| 12 ##GVCFBlock=minGQ=0(inclusive),maxGQ=1(exclusive) | |
| 13 ##GVCFBlock=minGQ=1(inclusive),maxGQ=2(exclusive) | |
| 14 ##GVCFBlock=minGQ=10(inclusive),maxGQ=11(exclusive) | |
| 15 ##GVCFBlock=minGQ=11(inclusive),maxGQ=12(exclusive) | |
| 16 ##GVCFBlock=minGQ=12(inclusive),maxGQ=13(exclusive) | |
| 17 ##GVCFBlock=minGQ=13(inclusive),maxGQ=14(exclusive) | |
| 18 ##GVCFBlock=minGQ=14(inclusive),maxGQ=15(exclusive) | |
| 19 ##GVCFBlock=minGQ=15(inclusive),maxGQ=16(exclusive) | |
| 20 ##GVCFBlock=minGQ=16(inclusive),maxGQ=17(exclusive) | |
| 21 ##GVCFBlock=minGQ=17(inclusive),maxGQ=18(exclusive) | |
| 22 ##GVCFBlock=minGQ=18(inclusive),maxGQ=19(exclusive) | |
| 23 ##GVCFBlock=minGQ=19(inclusive),maxGQ=20(exclusive) | |
| 24 ##GVCFBlock=minGQ=2(inclusive),maxGQ=3(exclusive) | |
| 25 ##GVCFBlock=minGQ=20(inclusive),maxGQ=21(exclusive) | |
| 26 ##GVCFBlock=minGQ=21(inclusive),maxGQ=22(exclusive) | |
| 27 ##GVCFBlock=minGQ=22(inclusive),maxGQ=23(exclusive) | |
| 28 ##GVCFBlock=minGQ=23(inclusive),maxGQ=24(exclusive) | |
| 29 ##GVCFBlock=minGQ=24(inclusive),maxGQ=25(exclusive) | |
| 30 ##GVCFBlock=minGQ=25(inclusive),maxGQ=26(exclusive) | |
| 31 ##GVCFBlock=minGQ=26(inclusive),maxGQ=27(exclusive) | |
| 32 ##GVCFBlock=minGQ=27(inclusive),maxGQ=28(exclusive) | |
| 33 ##GVCFBlock=minGQ=28(inclusive),maxGQ=29(exclusive) | |
| 34 ##GVCFBlock=minGQ=29(inclusive),maxGQ=30(exclusive) | |
| 35 ##GVCFBlock=minGQ=3(inclusive),maxGQ=4(exclusive) | |
| 36 ##GVCFBlock=minGQ=30(inclusive),maxGQ=31(exclusive) | |
| 37 ##GVCFBlock=minGQ=31(inclusive),maxGQ=32(exclusive) | |
| 38 ##GVCFBlock=minGQ=32(inclusive),maxGQ=33(exclusive) | |
| 39 ##GVCFBlock=minGQ=33(inclusive),maxGQ=34(exclusive) | |
| 40 ##GVCFBlock=minGQ=34(inclusive),maxGQ=35(exclusive) | |
| 41 ##GVCFBlock=minGQ=35(inclusive),maxGQ=36(exclusive) | |
| 42 ##GVCFBlock=minGQ=36(inclusive),maxGQ=37(exclusive) | |
| 43 ##GVCFBlock=minGQ=37(inclusive),maxGQ=38(exclusive) | |
| 44 ##GVCFBlock=minGQ=38(inclusive),maxGQ=39(exclusive) | |
| 45 ##GVCFBlock=minGQ=39(inclusive),maxGQ=40(exclusive) | |
| 46 ##GVCFBlock=minGQ=4(inclusive),maxGQ=5(exclusive) | |
| 47 ##GVCFBlock=minGQ=40(inclusive),maxGQ=41(exclusive) | |
| 48 ##GVCFBlock=minGQ=41(inclusive),maxGQ=42(exclusive) | |
| 49 ##GVCFBlock=minGQ=42(inclusive),maxGQ=43(exclusive) | |
| 50 ##GVCFBlock=minGQ=43(inclusive),maxGQ=44(exclusive) | |
| 51 ##GVCFBlock=minGQ=44(inclusive),maxGQ=45(exclusive) | |
| 52 ##GVCFBlock=minGQ=45(inclusive),maxGQ=46(exclusive) | |
| 53 ##GVCFBlock=minGQ=46(inclusive),maxGQ=47(exclusive) | |
| 54 ##GVCFBlock=minGQ=47(inclusive),maxGQ=48(exclusive) | |
| 55 ##GVCFBlock=minGQ=48(inclusive),maxGQ=49(exclusive) | |
| 56 ##GVCFBlock=minGQ=49(inclusive),maxGQ=50(exclusive) | |
| 57 ##GVCFBlock=minGQ=5(inclusive),maxGQ=6(exclusive) | |
| 58 ##GVCFBlock=minGQ=50(inclusive),maxGQ=51(exclusive) | |
| 59 ##GVCFBlock=minGQ=51(inclusive),maxGQ=52(exclusive) | |
| 60 ##GVCFBlock=minGQ=52(inclusive),maxGQ=53(exclusive) | |
| 61 ##GVCFBlock=minGQ=53(inclusive),maxGQ=54(exclusive) | |
| 62 ##GVCFBlock=minGQ=54(inclusive),maxGQ=55(exclusive) | |
| 63 ##GVCFBlock=minGQ=55(inclusive),maxGQ=56(exclusive) | |
| 64 ##GVCFBlock=minGQ=56(inclusive),maxGQ=57(exclusive) | |
| 65 ##GVCFBlock=minGQ=57(inclusive),maxGQ=58(exclusive) | |
| 66 ##GVCFBlock=minGQ=58(inclusive),maxGQ=59(exclusive) | |
| 67 ##GVCFBlock=minGQ=59(inclusive),maxGQ=60(exclusive) | |
| 68 ##GVCFBlock=minGQ=6(inclusive),maxGQ=7(exclusive) | |
| 69 ##GVCFBlock=minGQ=60(inclusive),maxGQ=70(exclusive) | |
| 70 ##GVCFBlock=minGQ=7(inclusive),maxGQ=8(exclusive) | |
| 71 ##GVCFBlock=minGQ=70(inclusive),maxGQ=80(exclusive) | |
| 72 ##GVCFBlock=minGQ=8(inclusive),maxGQ=9(exclusive) | |
| 73 ##GVCFBlock=minGQ=80(inclusive),maxGQ=90(exclusive) | |
| 74 ##GVCFBlock=minGQ=9(inclusive),maxGQ=10(exclusive) | |
| 75 ##GVCFBlock=minGQ=90(inclusive),maxGQ=99(exclusive) | |
| 76 ##GVCFBlock=minGQ=99(inclusive),maxGQ=2147483647(exclusive) | |
| 77 ##INFO=<ID=BaseQRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt Vs. Ref base qualities"> | |
| 78 ##INFO=<ID=ClippingRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref number of hard clipped bases"> | |
| 79 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth; some reads may have been filtered"> | |
| 80 ##INFO=<ID=DS,Number=0,Type=Flag,Description="Were any of the samples downsampled?"> | |
| 81 ##INFO=<ID=END,Number=1,Type=Integer,Description="Stop position of the interval"> | |
| 82 ##INFO=<ID=HaplotypeScore,Number=1,Type=Float,Description="Consistency of the site with at most two segregating haplotypes"> | |
| 83 ##INFO=<ID=InbreedingCoeff,Number=1,Type=Float,Description="Inbreeding coefficient as estimated from the genotype likelihoods per-sample when compared against the Hardy-Weinberg expectation"> | |
| 84 ##INFO=<ID=MLEAC,Number=A,Type=Integer,Description="Maximum likelihood expectation (MLE) for the allele counts (not necessarily the same as the AC), for each ALT allele, in the same order as listed"> | |
| 85 ##INFO=<ID=MLEAF,Number=A,Type=Float,Description="Maximum likelihood expectation (MLE) for the allele frequency (not necessarily the same as the AF), for each ALT allele, in the same order as listed"> | |
| 86 ##INFO=<ID=MQ,Number=1,Type=Float,Description="RMS Mapping Quality"> | |
| 87 ##INFO=<ID=MQ0,Number=1,Type=Integer,Description="Total Mapping Quality Zero Reads"> | |
| 88 ##INFO=<ID=MQRankSum,Number=1,Type=Float,Description="Z-score From Wilcoxon rank sum test of Alt vs. Ref read mapping qualities"> | |
| 89 ##INFO=<ID=ReadPosRankSum,Number=1,Type=Float,Description="Z-score from Wilcoxon rank sum test of Alt vs. Ref read position bias"> | |
| 90 ##contig=<ID=gi|448814763|ref|NC_000962.3|,length=4411532> | |
| 91 ##reference=file:///net/datasrv3hs.sanbi.ac.za/cip0/research/scratch/zahra/TB_wrk/TB_Variant_analysis/MDR/reference_H37Rv.fasta | |
| 92 #CHROM POS ID REF ALT QUAL FILTER INFO FORMAT ./R_2117_866#L5-_.R | |
| 93 gi|448814763|ref|NC_000962.3| 1 . T <NON_REF> . . END=1976 GT:DP:GQ:MIN_DP:PL 0:97:99:51:0,1710 | |
| 94 gi|448814763|ref|NC_000962.3| 1978 . T <NON_REF> . . END=4012 GT:DP:GQ:MIN_DP:PL 0:90:99:52:0,1779 | |
| 95 gi|448814763|ref|NC_000962.3| 4014 . C <NON_REF> . . END=7361 GT:DP:GQ:MIN_DP:PL 0:70:99:35:0,1159 | |
| 96 gi|448814763|ref|NC_000962.3| 7363 . A <NON_REF> . . END=7584 GT:DP:GQ:MIN_DP:PL 0:60:99:50:0,1746 | |
| 97 gi|448814763|ref|NC_000962.3| 7586 . C <NON_REF> . . END=9303 GT:DP:GQ:MIN_DP:PL 0:76:99:46:0,1601 | |
| 98 gi|448814763|ref|NC_000962.3| 9305 . C <NON_REF> . . END=11310 GT:DP:GQ:MIN_DP:PL 0:69:99:19:0,644 | |
| 99 gi|448814763|ref|NC_000962.3| 11312 . G <NON_REF> . . END=11369 GT:DP:GQ:MIN_DP:PL 0:83:99:78:0,1800 | |
| 100 gi|448814763|ref|NC_000962.3| 11371 . C <NON_REF> . . END=11878 GT:DP:GQ:MIN_DP:PL 0:71:99:40:0,1215 | |
| 101 gi|448814763|ref|NC_000962.3| 11880 . G <NON_REF> . . END=14784 GT:DP:GQ:MIN_DP:PL 0:71:99:27:0,765 | |
| 102 gi|448814763|ref|NC_000962.3| 14786 . G <NON_REF> . . END=21794 GT:DP:GQ:MIN_DP:PL 0:70:99:15:0,405 | |
| 103 gi|448814763|ref|NC_000962.3| 21796 . C <NON_REF> . . END=24697 GT:DP:GQ:MIN_DP:PL 0:60:99:5:0,135 | |
| 104 gi|448814763|ref|NC_000962.3| 24717 . C <NON_REF> . . END=24717 GT:DP:GQ:MIN_DP:PL 0:38:0:38:0,0 | |
| 105 gi|448814763|ref|NC_000962.3| 24718 . C <NON_REF> . . END=26958 GT:DP:GQ:MIN_DP:PL 0:60:99:26:0,852 | |
| 106 gi|448814763|ref|NC_000962.3| 26960 . C <NON_REF> . . END=29474 GT:DP:GQ:MIN_DP:PL 0:54:99:21:0,405 | |
| 107 gi|448814763|ref|NC_000962.3| 29475 . T <NON_REF> . . END=29476 GT:DP:GQ:MIN_DP:PL 0:70:44:69:0,45 | |
| 108 gi|448814763|ref|NC_000962.3| 29477 . A <NON_REF> . . END=29480 GT:DP:GQ:MIN_DP:PL 0:72:0:71:0,0 | |
| 109 gi|448814763|ref|NC_000962.3| 29481 . T <NON_REF> . . END=29481 GT:DP:GQ:MIN_DP:PL 0:72:44:72:0,45 | |
| 110 gi|448814763|ref|NC_000962.3| 29484 . A <NON_REF> . . END=29484 GT:DP:GQ:MIN_DP:PL 0:74:0:74:0,0 | |
| 111 gi|448814763|ref|NC_000962.3| 29485 . A <NON_REF> . . END=30518 GT:DP:GQ:MIN_DP:PL 0:78:99:26:0,798 | |
| 112 gi|448814763|ref|NC_000962.3| 30520 . G <NON_REF> . . END=30687 GT:DP:GQ:MIN_DP:PL 0:66:99:54:0,1653 | |
| 113 gi|448814763|ref|NC_000962.3| 30689 . C <NON_REF> . . END=30942 GT:DP:GQ:MIN_DP:PL 0:49:99:29:0,959 | |
| 114 gi|448814763|ref|NC_000962.3| 30944 . C <NON_REF> . . END=31076 GT:DP:GQ:MIN_DP:PL 0:58:99:43:0,1528 | |
| 115 gi|448814763|ref|NC_000962.3| 31078 . A <NON_REF> . . END=32341 GT:DP:GQ:MIN_DP:PL 0:69:99:39:0,135 | |
| 116 gi|448814763|ref|NC_000962.3| 32342 . G <NON_REF> . . END=32348 GT:DP:GQ:MIN_DP:PL 0:41:0:41:0,0 | |
| 117 gi|448814763|ref|NC_000962.3| 32387 . C <NON_REF> . . END=34043 GT:DP:GQ:MIN_DP:PL 0:60:99:26:0,900 | |
| 118 gi|448814763|ref|NC_000962.3| 34045 . G <NON_REF> . . END=37030 GT:DP:GQ:MIN_DP:PL 0:89:99:30:0,900 | |
| 119 gi|448814763|ref|NC_000962.3| 37032 . T <NON_REF> . . END=37909 GT:DP:GQ:MIN_DP:PL 0:58:99:36:0,1260 | |
| 120 gi|448814763|ref|NC_000962.3| 37911 . C <NON_REF> . . END=39218 GT:DP:GQ:MIN_DP:PL 0:65:99:30:0,180 | |
| 121 gi|448814763|ref|NC_000962.3| 39219 . G <NON_REF> . . END=39221 GT:DP:GQ:MIN_DP:PL 0:49:0:48:0,0 | |
| 122 gi|448814763|ref|NC_000962.3| 39222 . G <NON_REF> . . END=39222 GT:DP:GQ:MIN_DP:PL 0:52:99:52:0,135 | |
| 123 gi|448814763|ref|NC_000962.3| 39225 . C <NON_REF> . . END=39225 GT:DP:GQ:MIN_DP:PL 0:49:0:49:0,0 | |
| 124 gi|448814763|ref|NC_000962.3| 39226 . C <NON_REF> . . END=42966 GT:DP:GQ:MIN_DP:PL 0:46:99:20:0,633 | |
| 125 gi|448814763|ref|NC_000962.3| 42968 . G <NON_REF> . . END=50556 GT:DP:GQ:MIN_DP:PL 0:65:99:15:0,315 | |
| 126 gi|448814763|ref|NC_000962.3| 50558 . G <NON_REF> . . END=51948 GT:DP:GQ:MIN_DP:PL 0:73:99:39:0,1288 | |
| 127 gi|448814763|ref|NC_000962.3| 51950 . C <NON_REF> . . END=51953 GT:DP:GQ:MIN_DP:PL 0:77:99:75:0,1800 | |
| 128 gi|448814763|ref|NC_000962.3| 51955 . T <NON_REF> . . END=53784 GT:DP:GQ:MIN_DP:PL 0:57:99:11:0,364 | |
| 129 gi|448814763|ref|NC_000962.3| 53786 . G <NON_REF> . . END=54393 GT:DP:GQ:MIN_DP:PL 0:95:99:64:0,1800 | |
| 130 gi|448814763|ref|NC_000962.3| 54395 . G <NON_REF> . . END=55533 GT:DP:GQ:MIN_DP:PL 0:72:99:19:0,270 | |
| 131 gi|448814763|ref|NC_000962.3| 55534 . G <NON_REF> . . END=55552 GT:DP:GQ:MIN_DP:PL 0:25:0:20:0,0 | |
| 132 gi|448814763|ref|NC_000962.3| 55554 . C <NON_REF> . . END=55554 GT:DP:GQ:MIN_DP:PL 0:26:0:26:0,0 | |
| 133 gi|448814763|ref|NC_000962.3| 55555 . G <NON_REF> . . END=57392 GT:DP:GQ:MIN_DP:PL 0:48:99:14:0,422 | |
| 134 gi|448814763|ref|NC_000962.3| 57394 . C <NON_REF> . . END=62048 GT:DP:GQ:MIN_DP:PL 0:68:99:22:0,720 | |
| 135 gi|448814763|ref|NC_000962.3| 62050 . G <NON_REF> . . END=62656 GT:DP:GQ:MIN_DP:PL 0:86:99:37:0,1231 | |
| 136 gi|448814763|ref|NC_000962.3| 62658 . A <NON_REF> . . END=66284 GT:DP:GQ:MIN_DP:PL 0:87:99:26:0,900 | |
| 137 gi|448814763|ref|NC_000962.3| 66286 . G <NON_REF> . . END=69870 GT:DP:GQ:MIN_DP:PL 0:57:99:17:0,495 | |
| 138 gi|448814763|ref|NC_000962.3| 69872 . T <NON_REF> . . END=69988 GT:DP:GQ:MIN_DP:PL 0:69:99:53:0,1800 | |
| 139 gi|448814763|ref|NC_000962.3| 69990 . T <NON_REF> . . END=70815 GT:DP:GQ:MIN_DP:PL 0:76:99:36:0,1125 | |
| 140 gi|448814763|ref|NC_000962.3| 70817 . A <NON_REF> . . END=71335 GT:DP:GQ:MIN_DP:PL 0:72:99:33:0,900 | |
| 141 gi|448814763|ref|NC_000962.3| 71337 . C <NON_REF> . . END=71583 GT:DP:GQ:MIN_DP:PL 0:40:99:8:0,180 | |
| 142 gi|448814763|ref|NC_000962.3| 71585 . C <NON_REF> . . END=75263 GT:DP:GQ:MIN_DP:PL 0:78:99:28:0,389 | |
| 143 gi|448814763|ref|NC_000962.3| 75265 . T <NON_REF> . . END=75939 GT:DP:GQ:MIN_DP:PL 0:56:99:34:0,1161 | |
| 144 gi|448814763|ref|NC_000962.3| 75941 . T <NON_REF> . . END=80615 GT:DP:GQ:MIN_DP:PL 0:65:99:24:0,135 | |
| 145 gi|448814763|ref|NC_000962.3| 80617 . T <NON_REF> . . END=83981 GT:DP:GQ:MIN_DP:PL 0:72:99:31:0,1146 | |
| 146 gi|448814763|ref|NC_000962.3| 83983 . A <NON_REF> . . END=86575 GT:DP:GQ:MIN_DP:PL 0:67:99:27:0,900 | |
| 147 gi|448814763|ref|NC_000962.3| 86577 . A <NON_REF> . . END=92198 GT:DP:GQ:MIN_DP:PL 0:47:99:5:0,135 | |
| 148 gi|448814763|ref|NC_000962.3| 92200 . C <NON_REF> . . END=95590 GT:DP:GQ:MIN_DP:PL 0:46:99:20:0,756 | |
| 149 gi|448814763|ref|NC_000962.3| 95592 . A <NON_REF> . . END=97387 GT:DP:GQ:MIN_DP:PL 0:62:99:25:0,675 | |
| 150 gi|448814763|ref|NC_000962.3| 97389 . A <NON_REF> . . END=103835 GT:DP:GQ:MIN_DP:PL 0:55:99:12:0,423 | |
| 151 gi|448814763|ref|NC_000962.3| 103837 . T <NON_REF> . . END=103883 GT:DP:GQ:MIN_DP:PL 0:10:99:8:0,135 | |
| 152 gi|448814763|ref|NC_000962.3| 103884 . G <NON_REF> . . END=103888 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 153 gi|448814763|ref|NC_000962.3| 103889 . G <NON_REF> . . END=103894 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 154 gi|448814763|ref|NC_000962.3| 103895 . G <NON_REF> . . END=104531 GT:DP:GQ:MIN_DP:PL 0:0:0:0:0,0 | |
| 155 gi|448814763|ref|NC_000962.3| 104532 . T <NON_REF> . . END=104532 GT:DP:GQ:MIN_DP:PL 0:1:34:1:0,35 | |
| 156 gi|448814763|ref|NC_000962.3| 104533 . T <NON_REF> . . END=104533 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 157 gi|448814763|ref|NC_000962.3| 104534 . C <NON_REF> . . END=104534 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 158 gi|448814763|ref|NC_000962.3| 104535 . G <NON_REF> . . END=104535 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 159 gi|448814763|ref|NC_000962.3| 104536 . G <NON_REF> . . END=104536 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 160 gi|448814763|ref|NC_000962.3| 104537 . T <NON_REF> . . END=104537 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 161 gi|448814763|ref|NC_000962.3| 104538 . G <NON_REF> . . END=104538 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 162 gi|448814763|ref|NC_000962.3| 104539 . T <NON_REF> . . END=104539 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 163 gi|448814763|ref|NC_000962.3| 104540 . C <NON_REF> . . END=104540 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 164 gi|448814763|ref|NC_000962.3| 104541 . G <NON_REF> . . END=104541 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 165 gi|448814763|ref|NC_000962.3| 104542 . G <NON_REF> . . END=104542 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 166 gi|448814763|ref|NC_000962.3| 104543 . T <NON_REF> . . END=104543 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 167 gi|448814763|ref|NC_000962.3| 104544 . G <NON_REF> . . END=104544 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 168 gi|448814763|ref|NC_000962.3| 104545 . A <NON_REF> . . END=104545 GT:DP:GQ:MIN_DP:PL 0:1:33:1:0,34 | |
| 169 gi|448814763|ref|NC_000962.3| 104546 . G <NON_REF> . . END=104546 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 170 gi|448814763|ref|NC_000962.3| 104547 . G <NON_REF> . . END=104547 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 171 gi|448814763|ref|NC_000962.3| 104548 . T <NON_REF> . . END=104548 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 172 gi|448814763|ref|NC_000962.3| 104549 . C <NON_REF> . . END=104549 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 173 gi|448814763|ref|NC_000962.3| 104550 . G <NON_REF> . . END=104550 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 174 gi|448814763|ref|NC_000962.3| 104551 . C <NON_REF> . . END=104551 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 175 gi|448814763|ref|NC_000962.3| 104552 . C <NON_REF> . . END=104553 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 176 gi|448814763|ref|NC_000962.3| 104554 . T <NON_REF> . . END=104554 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 177 gi|448814763|ref|NC_000962.3| 104555 . C <NON_REF> . . END=104555 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 178 gi|448814763|ref|NC_000962.3| 104556 . G <NON_REF> . . END=104559 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 179 gi|448814763|ref|NC_000962.3| 104560 . T <NON_REF> . . END=104560 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 180 gi|448814763|ref|NC_000962.3| 104561 . G <NON_REF> . . END=104561 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 181 gi|448814763|ref|NC_000962.3| 104562 . T <NON_REF> . . END=104562 GT:DP:GQ:MIN_DP:PL 0:1:33:1:0,34 | |
| 182 gi|448814763|ref|NC_000962.3| 104563 . A <NON_REF> . . END=104563 GT:DP:GQ:MIN_DP:PL 0:1:34:1:0,35 | |
| 183 gi|448814763|ref|NC_000962.3| 104564 . G <NON_REF> . . END=104564 GT:DP:GQ:MIN_DP:PL 0:1:30:1:0,31 | |
| 184 gi|448814763|ref|NC_000962.3| 104565 . C <NON_REF> . . END=104566 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 185 gi|448814763|ref|NC_000962.3| 104567 . A <NON_REF> . . END=104567 GT:DP:GQ:MIN_DP:PL 0:1:27:1:0,28 | |
| 186 gi|448814763|ref|NC_000962.3| 104568 . G <NON_REF> . . END=104568 GT:DP:GQ:MIN_DP:PL 0:1:31:1:0,32 | |
| 187 gi|448814763|ref|NC_000962.3| 104569 . T <NON_REF> . . END=104569 GT:DP:GQ:MIN_DP:PL 0:1:33:1:0,34 | |
| 188 gi|448814763|ref|NC_000962.3| 104570 . C <NON_REF> . . END=104570 GT:DP:GQ:MIN_DP:PL 0:1:31:1:0,32 | |
| 189 gi|448814763|ref|NC_000962.3| 104571 . C <NON_REF> . . END=104571 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 190 gi|448814763|ref|NC_000962.3| 104572 . A <NON_REF> . . END=104572 GT:DP:GQ:MIN_DP:PL 0:1:33:1:0,34 | |
| 191 gi|448814763|ref|NC_000962.3| 104573 . T <NON_REF> . . END=104573 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 192 gi|448814763|ref|NC_000962.3| 104574 . G <NON_REF> . . END=104574 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 193 gi|448814763|ref|NC_000962.3| 104575 . A <NON_REF> . . END=104575 GT:DP:GQ:MIN_DP:PL 0:1:31:1:0,32 | |
| 194 gi|448814763|ref|NC_000962.3| 104576 . C <NON_REF> . . END=104576 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 195 gi|448814763|ref|NC_000962.3| 104577 . C <NON_REF> . . END=104577 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 196 gi|448814763|ref|NC_000962.3| 104578 . C <NON_REF> . . END=104578 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 197 gi|448814763|ref|NC_000962.3| 104579 . G <NON_REF> . . END=104579 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 198 gi|448814763|ref|NC_000962.3| 104580 . C <NON_REF> . . END=104580 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 199 gi|448814763|ref|NC_000962.3| 104581 . T <NON_REF> . . END=104711 GT:DP:GQ:MIN_DP:PL 0:13:99:3:0,110 | |
| 200 gi|448814763|ref|NC_000962.3| 104713 . G <NON_REF> . . END=109811 GT:DP:GQ:MIN_DP:PL 0:77:99:9:0,270 | |
| 201 gi|448814763|ref|NC_000962.3| 109813 . G <NON_REF> . . END=115999 GT:DP:GQ:MIN_DP:PL 0:59:99:15:0,499 | |
| 202 gi|448814763|ref|NC_000962.3| 116001 . C <NON_REF> . . END=119668 GT:DP:GQ:MIN_DP:PL 0:61:99:26:0,863 | |
| 203 gi|448814763|ref|NC_000962.3| 119670 . C <NON_REF> . . END=122108 GT:DP:GQ:MIN_DP:PL 0:54:99:21:0,619 | |
| 204 gi|448814763|ref|NC_000962.3| 122110 . A <NON_REF> . . END=125825 GT:DP:GQ:MIN_DP:PL 0:73:99:28:0,135 | |
| 205 gi|448814763|ref|NC_000962.3| 125826 . A <NON_REF> . . END=125826 GT:DP:GQ:MIN_DP:PL 0:84:44:84:0,45 | |
| 206 gi|448814763|ref|NC_000962.3| 125827 . C <NON_REF> . . END=125829 GT:DP:GQ:MIN_DP:PL 0:85:99:84:0,135 | |
| 207 gi|448814763|ref|NC_000962.3| 125831 . A <NON_REF> . . END=125831 GT:DP:GQ:MIN_DP:PL 0:80:0:80:0,0 | |
| 208 gi|448814763|ref|NC_000962.3| 125832 . A <NON_REF> . . END=128337 GT:DP:GQ:MIN_DP:PL 0:41:99:10:0,225 | |
| 209 gi|448814763|ref|NC_000962.3| 128339 . G <NON_REF> . . END=131166 GT:DP:GQ:MIN_DP:PL 0:57:99:17:0,225 | |
| 210 gi|448814763|ref|NC_000962.3| 131167 . C <NON_REF> . . END=131169 GT:DP:GQ:MIN_DP:PL 0:70:0:68:0,0 | |
| 211 gi|448814763|ref|NC_000962.3| 131170 . T <NON_REF> . . END=131173 GT:DP:GQ:MIN_DP:PL 0:75:99:74:0,135 | |
| 212 gi|448814763|ref|NC_000962.3| 131175 . G <NON_REF> . . END=131175 GT:DP:GQ:MIN_DP:PL 0:73:0:73:0,0 | |
| 213 gi|448814763|ref|NC_000962.3| 131176 . G <NON_REF> . . END=132125 GT:DP:GQ:MIN_DP:PL 0:56:99:7:0,180 | |
| 214 gi|448814763|ref|NC_000962.3| 132126 . G <NON_REF> . . END=132131 GT:DP:GQ:MIN_DP:PL 0:6:89:5:0,90 | |
| 215 gi|448814763|ref|NC_000962.3| 132132 . G <NON_REF> . . END=132138 GT:DP:GQ:MIN_DP:PL 0:6:44:4:0,45 | |
| 216 gi|448814763|ref|NC_000962.3| 132139 . A <NON_REF> . . END=132145 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 217 gi|448814763|ref|NC_000962.3| 132146 . C <NON_REF> . . END=132146 GT:DP:GQ:MIN_DP:PL 0:2:77:2:0,78 | |
| 218 gi|448814763|ref|NC_000962.3| 132147 . A <NON_REF> . . END=132147 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 219 gi|448814763|ref|NC_000962.3| 132148 . C <NON_REF> . . END=132150 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,76 | |
| 220 gi|448814763|ref|NC_000962.3| 132151 . C <NON_REF> . . END=132154 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,108 | |
| 221 gi|448814763|ref|NC_000962.3| 132155 . A <NON_REF> . . END=132155 GT:DP:GQ:MIN_DP:PL 0:3:93:3:0,93 | |
| 222 gi|448814763|ref|NC_000962.3| 132156 . C <NON_REF> . . END=132156 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,105 | |
| 223 gi|448814763|ref|NC_000962.3| 132157 . T <NON_REF> . . END=132157 GT:DP:GQ:MIN_DP:PL 0:3:64:3:0,65 | |
| 224 gi|448814763|ref|NC_000962.3| 132158 . G <NON_REF> . . END=132159 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,108 | |
| 225 gi|448814763|ref|NC_000962.3| 132160 . T <NON_REF> . . END=132161 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 226 gi|448814763|ref|NC_000962.3| 132162 . G <NON_REF> . . END=132311 GT:DP:GQ:MIN_DP:PL 0:11:99:4:0,122 | |
| 227 gi|448814763|ref|NC_000962.3| 132312 . G <NON_REF> . . END=132322 GT:DP:GQ:MIN_DP:PL 0:5:89:4:0,90 | |
| 228 gi|448814763|ref|NC_000962.3| 132323 . C <NON_REF> . . END=132331 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 229 gi|448814763|ref|NC_000962.3| 132332 . C <NON_REF> . . END=132336 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 230 gi|448814763|ref|NC_000962.3| 132337 . A <NON_REF> . . END=132338 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,72 | |
| 231 gi|448814763|ref|NC_000962.3| 132339 . G <NON_REF> . . END=132347 GT:DP:GQ:MIN_DP:PL 0:2:82:2:0,81 | |
| 232 gi|448814763|ref|NC_000962.3| 132348 . G <NON_REF> . . END=132416 GT:DP:GQ:MIN_DP:PL 0:8:99:3:0,109 | |
| 233 gi|448814763|ref|NC_000962.3| 132418 . G <NON_REF> . . END=132530 GT:DP:GQ:MIN_DP:PL 0:14:99:6:0,135 | |
| 234 gi|448814763|ref|NC_000962.3| 132531 . G <NON_REF> . . END=132534 GT:DP:GQ:MIN_DP:PL 0:6:89:6:0,90 | |
| 235 gi|448814763|ref|NC_000962.3| 132535 . G <NON_REF> . . END=132538 GT:DP:GQ:MIN_DP:PL 0:4:44:4:0,45 | |
| 236 gi|448814763|ref|NC_000962.3| 132539 . G <NON_REF> . . END=133838 GT:DP:GQ:MIN_DP:PL 0:49:99:4:0,135 | |
| 237 gi|448814763|ref|NC_000962.3| 133840 . G <NON_REF> . . END=137844 GT:DP:GQ:MIN_DP:PL 0:79:99:24:0,225 | |
| 238 gi|448814763|ref|NC_000962.3| 137845 . A <NON_REF> . . END=137845 GT:DP:GQ:MIN_DP:PL 0:80:44:80:0,45 | |
| 239 gi|448814763|ref|NC_000962.3| 137846 . C <NON_REF> . . END=137849 GT:DP:GQ:MIN_DP:PL 0:78:0:78:0,0 | |
| 240 gi|448814763|ref|NC_000962.3| 137852 . T <NON_REF> . . END=137852 GT:DP:GQ:MIN_DP:PL 0:76:0:76:0,0 | |
| 241 gi|448814763|ref|NC_000962.3| 137853 . T <NON_REF> . . END=144389 GT:DP:GQ:MIN_DP:PL 0:71:99:23:0,720 | |
| 242 gi|448814763|ref|NC_000962.3| 144391 . G <NON_REF> . . END=146086 GT:DP:GQ:MIN_DP:PL 0:56:99:17:0,499 | |
| 243 gi|448814763|ref|NC_000962.3| 146088 . T <NON_REF> . . END=147984 GT:DP:GQ:MIN_DP:PL 0:65:99:38:0,1080 | |
| 244 gi|448814763|ref|NC_000962.3| 147986 . A <NON_REF> . . END=150011 GT:DP:GQ:MIN_DP:PL 0:58:99:3:0,117 | |
| 245 gi|448814763|ref|NC_000962.3| 150012 . C <NON_REF> . . END=150012 GT:DP:GQ:MIN_DP:PL 0:6:89:6:0,90 | |
| 246 gi|448814763|ref|NC_000962.3| 150013 . G <NON_REF> . . END=150018 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,135 | |
| 247 gi|448814763|ref|NC_000962.3| 150019 . G <NON_REF> . . END=150024 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 248 gi|448814763|ref|NC_000962.3| 150025 . T <NON_REF> . . END=150025 GT:DP:GQ:MIN_DP:PL 0:4:57:4:0,57 | |
| 249 gi|448814763|ref|NC_000962.3| 150026 . C <NON_REF> . . END=150030 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 250 gi|448814763|ref|NC_000962.3| 150031 . G <NON_REF> . . END=150037 GT:DP:GQ:MIN_DP:PL 0:5:99:4:0,128 | |
| 251 gi|448814763|ref|NC_000962.3| 150038 . G <NON_REF> . . END=150038 GT:DP:GQ:MIN_DP:PL 0:4:72:4:0,73 | |
| 252 gi|448814763|ref|NC_000962.3| 150039 . C <NON_REF> . . END=150135 GT:DP:GQ:MIN_DP:PL 0:7:99:4:0,116 | |
| 253 gi|448814763|ref|NC_000962.3| 150136 . G <NON_REF> . . END=150148 GT:DP:GQ:MIN_DP:PL 0:4:89:2:0,83 | |
| 254 gi|448814763|ref|NC_000962.3| 150149 . A <NON_REF> . . END=150149 GT:DP:GQ:MIN_DP:PL 0:2:71:2:0,72 | |
| 255 gi|448814763|ref|NC_000962.3| 150150 . C <NON_REF> . . END=150150 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 256 gi|448814763|ref|NC_000962.3| 150151 . G <NON_REF> . . END=150155 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 257 gi|448814763|ref|NC_000962.3| 150156 . T <NON_REF> . . END=150164 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 258 gi|448814763|ref|NC_000962.3| 150165 . T <NON_REF> . . END=150165 GT:DP:GQ:MIN_DP:PL 0:2:71:2:0,72 | |
| 259 gi|448814763|ref|NC_000962.3| 150166 . G <NON_REF> . . END=150175 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 260 gi|448814763|ref|NC_000962.3| 150176 . T <NON_REF> . . END=150176 GT:DP:GQ:MIN_DP:PL 0:2:57:2:0,57 | |
| 261 gi|448814763|ref|NC_000962.3| 150177 . G <NON_REF> . . END=150183 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,103 | |
| 262 gi|448814763|ref|NC_000962.3| 150184 . G <NON_REF> . . END=150185 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 263 gi|448814763|ref|NC_000962.3| 150186 . C <NON_REF> . . END=150197 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 264 gi|448814763|ref|NC_000962.3| 150198 . T <NON_REF> . . END=150198 GT:DP:GQ:MIN_DP:PL 0:1:27:1:0,28 | |
| 265 gi|448814763|ref|NC_000962.3| 150199 . G <NON_REF> . . END=150220 GT:DP:GQ:MIN_DP:PL 0:1:0:0:0,0 | |
| 266 gi|448814763|ref|NC_000962.3| 150221 . A <NON_REF> . . END=150221 GT:DP:GQ:MIN_DP:PL 0:1:24:1:0,25 | |
| 267 gi|448814763|ref|NC_000962.3| 150222 . T <NON_REF> . . END=150222 GT:DP:GQ:MIN_DP:PL 0:1:19:1:0,20 | |
| 268 gi|448814763|ref|NC_000962.3| 150223 . G <NON_REF> . . END=150223 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,77 | |
| 269 gi|448814763|ref|NC_000962.3| 150224 . C <NON_REF> . . END=150224 GT:DP:GQ:MIN_DP:PL 0:2:63:2:0,63 | |
| 270 gi|448814763|ref|NC_000962.3| 150225 . C <NON_REF> . . END=150225 GT:DP:GQ:MIN_DP:PL 0:2:70:2:0,71 | |
| 271 gi|448814763|ref|NC_000962.3| 150226 . A <NON_REF> . . END=150227 GT:DP:GQ:MIN_DP:PL 0:2:67:2:0,63 | |
| 272 gi|448814763|ref|NC_000962.3| 150228 . C <NON_REF> . . END=150228 GT:DP:GQ:MIN_DP:PL 0:2:72:2:0,73 | |
| 273 gi|448814763|ref|NC_000962.3| 150229 . A <NON_REF> . . END=150229 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 274 gi|448814763|ref|NC_000962.3| 150230 . T <NON_REF> . . END=150230 GT:DP:GQ:MIN_DP:PL 0:2:56:2:0,56 | |
| 275 gi|448814763|ref|NC_000962.3| 150231 . C <NON_REF> . . END=150231 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 276 gi|448814763|ref|NC_000962.3| 150232 . G <NON_REF> . . END=150232 GT:DP:GQ:MIN_DP:PL 0:2:60:2:0,60 | |
| 277 gi|448814763|ref|NC_000962.3| 150233 . T <NON_REF> . . END=150233 GT:DP:GQ:MIN_DP:PL 0:2:71:2:0,72 | |
| 278 gi|448814763|ref|NC_000962.3| 150234 . C <NON_REF> . . END=150234 GT:DP:GQ:MIN_DP:PL 0:2:65:2:0,66 | |
| 279 gi|448814763|ref|NC_000962.3| 150235 . A <NON_REF> . . END=150236 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,99 | |
| 280 gi|448814763|ref|NC_000962.3| 150237 . C <NON_REF> . . END=150239 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 281 gi|448814763|ref|NC_000962.3| 150240 . T <NON_REF> . . END=150240 GT:DP:GQ:MIN_DP:PL 0:3:39:3:0,40 | |
| 282 gi|448814763|ref|NC_000962.3| 150241 . G <NON_REF> . . END=150242 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,135 | |
| 283 gi|448814763|ref|NC_000962.3| 150243 . A <NON_REF> . . END=150243 GT:DP:GQ:MIN_DP:PL 0:3:98:3:0,98 | |
| 284 gi|448814763|ref|NC_000962.3| 150244 . G <NON_REF> . . END=150258 GT:DP:GQ:MIN_DP:PL 0:5:99:4:0,134 | |
| 285 gi|448814763|ref|NC_000962.3| 150259 . G <NON_REF> . . END=150260 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 286 gi|448814763|ref|NC_000962.3| 150261 . T <NON_REF> . . END=150261 GT:DP:GQ:MIN_DP:PL 0:4:65:4:0,66 | |
| 287 gi|448814763|ref|NC_000962.3| 150262 . G <NON_REF> . . END=150269 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 288 gi|448814763|ref|NC_000962.3| 150270 . C <NON_REF> . . END=150270 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 289 gi|448814763|ref|NC_000962.3| 150271 . G <NON_REF> . . END=150272 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,81 | |
| 290 gi|448814763|ref|NC_000962.3| 150273 . T <NON_REF> . . END=150275 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 291 gi|448814763|ref|NC_000962.3| 150276 . C <NON_REF> . . END=150276 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 292 gi|448814763|ref|NC_000962.3| 150277 . G <NON_REF> . . END=150286 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 293 gi|448814763|ref|NC_000962.3| 150287 . A <NON_REF> . . END=150287 GT:DP:GQ:MIN_DP:PL 0:1:22:1:0,23 | |
| 294 gi|448814763|ref|NC_000962.3| 150288 . C <NON_REF> . . END=150288 GT:DP:GQ:MIN_DP:PL 0:1:33:1:0,34 | |
| 295 gi|448814763|ref|NC_000962.3| 150289 . G <NON_REF> . . END=150289 GT:DP:GQ:MIN_DP:PL 0:1:32:1:0,33 | |
| 296 gi|448814763|ref|NC_000962.3| 150290 . G <NON_REF> . . END=150290 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 297 gi|448814763|ref|NC_000962.3| 150291 . C <NON_REF> . . END=150291 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,80 | |
| 298 gi|448814763|ref|NC_000962.3| 150292 . G <NON_REF> . . END=150292 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,117 | |
| 299 gi|448814763|ref|NC_000962.3| 150293 . A <NON_REF> . . END=150293 GT:DP:GQ:MIN_DP:PL 0:3:88:3:0,88 | |
| 300 gi|448814763|ref|NC_000962.3| 150294 . C <NON_REF> . . END=150317 GT:DP:GQ:MIN_DP:PL 0:5:99:3:0,106 | |
| 301 gi|448814763|ref|NC_000962.3| 150318 . A <NON_REF> . . END=150319 GT:DP:GQ:MIN_DP:PL 0:6:44:6:0,45 | |
| 302 gi|448814763|ref|NC_000962.3| 150320 . A <NON_REF> . . END=150325 GT:DP:GQ:MIN_DP:PL 0:6:0:5:0,0 | |
| 303 gi|448814763|ref|NC_000962.3| 150336 . C <NON_REF> . . END=150336 GT:DP:GQ:MIN_DP:PL 0:4:0:4:0,0 | |
| 304 gi|448814763|ref|NC_000962.3| 150337 . G <NON_REF> . . END=150337 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,180 | |
| 305 gi|448814763|ref|NC_000962.3| 150338 . G <NON_REF> . . END=150338 GT:DP:GQ:MIN_DP:PL 0:5:44:5:0,45 | |
| 306 gi|448814763|ref|NC_000962.3| 150339 . C <NON_REF> . . END=150345 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 307 gi|448814763|ref|NC_000962.3| 150346 . G <NON_REF> . . END=150355 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,135 | |
| 308 gi|448814763|ref|NC_000962.3| 150356 . A <NON_REF> . . END=150356 GT:DP:GQ:MIN_DP:PL 0:5:79:5:0,79 | |
| 309 gi|448814763|ref|NC_000962.3| 150357 . C <NON_REF> . . END=150593 GT:DP:GQ:MIN_DP:PL 0:8:99:3:0,101 | |
| 310 gi|448814763|ref|NC_000962.3| 150594 . C <NON_REF> . . END=150603 GT:DP:GQ:MIN_DP:PL 0:6:44:4:0,45 | |
| 311 gi|448814763|ref|NC_000962.3| 150604 . G <NON_REF> . . END=150895 GT:DP:GQ:MIN_DP:PL 0:12:99:4:0,109 | |
| 312 gi|448814763|ref|NC_000962.3| 150896 . C <NON_REF> . . END=150896 GT:DP:GQ:MIN_DP:PL 0:20:0:20:0,0 | |
| 313 gi|448814763|ref|NC_000962.3| 150897 . C <NON_REF> . . END=150903 GT:DP:GQ:MIN_DP:PL 0:22:99:20:0,144 | |
| 314 gi|448814763|ref|NC_000962.3| 150904 . A <NON_REF> . . END=150904 GT:DP:GQ:MIN_DP:PL 0:19:51:19:0,51 | |
| 315 gi|448814763|ref|NC_000962.3| 150905 . C <NON_REF> . . END=151176 GT:DP:GQ:MIN_DP:PL 0:41:99:10:0,149 | |
| 316 gi|448814763|ref|NC_000962.3| 151178 . T <NON_REF> . . END=154282 GT:DP:GQ:MIN_DP:PL 0:61:99:27:0,951 | |
| 317 gi|448814763|ref|NC_000962.3| 154284 . C <NON_REF> . . END=155292 GT:DP:GQ:MIN_DP:PL 0:62:99:31:0,1080 | |
| 318 gi|448814763|ref|NC_000962.3| 155294 . G <NON_REF> . . END=163572 GT:DP:GQ:MIN_DP:PL 0:57:99:16:0,405 | |
| 319 gi|448814763|ref|NC_000962.3| 163574 . G <NON_REF> . . END=174683 GT:DP:GQ:MIN_DP:PL 0:55:99:13:0,450 | |
| 320 gi|448814763|ref|NC_000962.3| 174685 . G <NON_REF> . . END=177595 GT:DP:GQ:MIN_DP:PL 0:62:99:27:0,810 | |
| 321 gi|448814763|ref|NC_000962.3| 177597 . C <NON_REF> . . END=177856 GT:DP:GQ:MIN_DP:PL 0:72:99:39:0,1170 | |
| 322 gi|448814763|ref|NC_000962.3| 177858 . C <NON_REF> . . END=178945 GT:DP:GQ:MIN_DP:PL 0:82:99:40:0,1417 | |
| 323 gi|448814763|ref|NC_000962.3| 178947 . G <NON_REF> . . END=187583 GT:DP:GQ:MIN_DP:PL 0:63:99:7:0,225 | |
| 324 gi|448814763|ref|NC_000962.3| 187585 . A <NON_REF> . . END=187737 GT:DP:GQ:MIN_DP:PL 0:59:99:31:0,905 | |
| 325 gi|448814763|ref|NC_000962.3| 187739 . T <NON_REF> . . END=188799 GT:DP:GQ:MIN_DP:PL 0:83:99:14:0,180 | |
| 326 gi|448814763|ref|NC_000962.3| 188801 . C <NON_REF> . . END=191852 GT:DP:GQ:MIN_DP:PL 0:56:99:20:0,419 | |
| 327 gi|448814763|ref|NC_000962.3| 191854 . C <NON_REF> . . END=194680 GT:DP:GQ:MIN_DP:PL 0:63:99:10:0,347 | |
| 328 gi|448814763|ref|NC_000962.3| 194682 . A <NON_REF> . . END=196641 GT:DP:GQ:MIN_DP:PL 0:75:99:28:0,810 | |
| 329 gi|448814763|ref|NC_000962.3| 196643 . C <NON_REF> . . END=206338 GT:DP:GQ:MIN_DP:PL 0:75:99:12:0,270 | |
| 330 gi|448814763|ref|NC_000962.3| 206340 . G <NON_REF> . . END=220049 GT:DP:GQ:MIN_DP:PL 0:62:99:9:0,225 | |
| 331 gi|448814763|ref|NC_000962.3| 220051 . A <NON_REF> . . END=223941 GT:DP:GQ:MIN_DP:PL 0:61:99:9:0,315 | |
| 332 gi|448814763|ref|NC_000962.3| 223943 . C <NON_REF> . . END=225322 GT:DP:GQ:MIN_DP:PL 0:69:99:13:0,456 | |
| 333 gi|448814763|ref|NC_000962.3| 225324 . G <NON_REF> . . END=227097 GT:DP:GQ:MIN_DP:PL 0:88:99:43:0,1575 | |
| 334 gi|448814763|ref|NC_000962.3| 227099 . G <NON_REF> . . END=231113 GT:DP:GQ:MIN_DP:PL 0:59:99:17:0,540 | |
| 335 gi|448814763|ref|NC_000962.3| 231115 . C <NON_REF> . . END=232573 GT:DP:GQ:MIN_DP:PL 0:56:99:23:0,730 | |
| 336 gi|448814763|ref|NC_000962.3| 232575 . C <NON_REF> . . END=234476 GT:DP:GQ:MIN_DP:PL 0:59:99:13:0,135 | |
| 337 gi|448814763|ref|NC_000962.3| 234478 . C <NON_REF> . . END=234482 GT:DP:GQ:MIN_DP:PL 0:12:99:11:0,135 | |
| 338 gi|448814763|ref|NC_000962.3| 234483 . A <NON_REF> . . END=234485 GT:DP:GQ:MIN_DP:PL 0:8:89:8:0,90 | |
| 339 gi|448814763|ref|NC_000962.3| 234486 . G <NON_REF> . . END=234487 GT:DP:GQ:MIN_DP:PL 0:16:44:12:0,45 | |
| 340 gi|448814763|ref|NC_000962.3| 234488 . C <NON_REF> . . END=234490 GT:DP:GQ:MIN_DP:PL 0:16:0:16:0,0 | |
| 341 gi|448814763|ref|NC_000962.3| 234491 . T <NON_REF> . . END=234491 GT:DP:GQ:MIN_DP:PL 0:17:44:17:0,45 | |
| 342 gi|448814763|ref|NC_000962.3| 234492 . T <NON_REF> . . END=234492 GT:DP:GQ:MIN_DP:PL 0:18:89:18:0,90 | |
| 343 gi|448814763|ref|NC_000962.3| 234493 . C <NON_REF> . . END=234495 GT:DP:GQ:MIN_DP:PL 0:21:99:20:0,225 | |
| 344 gi|448814763|ref|NC_000962.3| 234497 . C <NON_REF> . . END=234497 GT:DP:GQ:MIN_DP:PL 0:26:0:26:0,0 | |
| 345 gi|448814763|ref|NC_000962.3| 234498 . T <NON_REF> . . END=251467 GT:DP:GQ:MIN_DP:PL 0:58:99:4:0,151 | |
| 346 gi|448814763|ref|NC_000962.3| 251469 . C <NON_REF> . . END=261868 GT:DP:GQ:MIN_DP:PL 0:72:99:14:0,360 | |
| 347 gi|448814763|ref|NC_000962.3| 261870 . G <NON_REF> . . END=265474 GT:DP:GQ:MIN_DP:PL 0:63:99:6:0,212 | |
| 348 gi|448814763|ref|NC_000962.3| 265476 . A <NON_REF> . . END=265553 GT:DP:GQ:MIN_DP:PL 0:113:99:105:0,1800 | |
| 349 gi|448814763|ref|NC_000962.3| 265555 . G <NON_REF> . . END=265967 GT:DP:GQ:MIN_DP:PL 0:72:99:37:0,1314 | |
| 350 gi|448814763|ref|NC_000962.3| 265969 . A <NON_REF> . . END=278680 GT:DP:GQ:MIN_DP:PL 0:59:99:14:0,427 | |
| 351 gi|448814763|ref|NC_000962.3| 278682 . A <NON_REF> . . END=279555 GT:DP:GQ:MIN_DP:PL 0:69:99:4:0,135 | |
| 352 gi|448814763|ref|NC_000962.3| 279556 . C <NON_REF> . . END=279557 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 353 gi|448814763|ref|NC_000962.3| 279558 . A <NON_REF> . . END=279561 GT:DP:GQ:MIN_DP:PL 0:4:44:4:0,45 | |
| 354 gi|448814763|ref|NC_000962.3| 279562 . C <NON_REF> . . END=279563 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 355 gi|448814763|ref|NC_000962.3| 279564 . T <NON_REF> . . END=283613 GT:DP:GQ:MIN_DP:PL 0:54:99:5:0,135 | |
| 356 gi|448814763|ref|NC_000962.3| 283615 . A <NON_REF> . . END=284622 GT:DP:GQ:MIN_DP:PL 0:37:99:17:0,540 | |
| 357 gi|448814763|ref|NC_000962.3| 284624 . G <NON_REF> . . END=285771 GT:DP:GQ:MIN_DP:PL 0:26:99:9:0,305 | |
| 358 gi|448814763|ref|NC_000962.3| 285773 . G <NON_REF> . . END=285870 GT:DP:GQ:MIN_DP:PL 0:24:99:19:0,585 | |
| 359 gi|448814763|ref|NC_000962.3| 285872 . A <NON_REF> . . END=293623 GT:DP:GQ:MIN_DP:PL 0:51:99:9:0,135 | |
| 360 gi|448814763|ref|NC_000962.3| 293624 . T <NON_REF> . . END=293627 GT:DP:GQ:MIN_DP:PL 0:47:0:46:0,0 | |
| 361 gi|448814763|ref|NC_000962.3| 293629 . C <NON_REF> . . END=293629 GT:DP:GQ:MIN_DP:PL 0:51:0:51:0,0 | |
| 362 gi|448814763|ref|NC_000962.3| 293630 . C <NON_REF> . . END=301289 GT:DP:GQ:MIN_DP:PL 0:78:99:19:0,391 | |
| 363 gi|448814763|ref|NC_000962.3| 301291 . T <NON_REF> . . END=304678 GT:DP:GQ:MIN_DP:PL 0:66:99:28:0,922 | |
| 364 gi|448814763|ref|NC_000962.3| 304680 . C <NON_REF> . . END=304922 GT:DP:GQ:MIN_DP:PL 0:83:99:58:0,1800 | |
| 365 gi|448814763|ref|NC_000962.3| 304924 . A <NON_REF> . . END=310972 GT:DP:GQ:MIN_DP:PL 0:59:99:4:0,135 | |
| 366 gi|448814763|ref|NC_000962.3| 310974 . C <NON_REF> . . END=311612 GT:DP:GQ:MIN_DP:PL 0:65:99:42:0,1386 | |
| 367 gi|448814763|ref|NC_000962.3| 311614 . A <NON_REF> . . END=315501 GT:DP:GQ:MIN_DP:PL 0:57:99:14:0,405 | |
| 368 gi|448814763|ref|NC_000962.3| 315503 . C <NON_REF> . . END=320037 GT:DP:GQ:MIN_DP:PL 0:46:99:13:0,360 | |
| 369 gi|448814763|ref|NC_000962.3| 320039 . G <NON_REF> . . END=328640 GT:DP:GQ:MIN_DP:PL 0:55:99:16:0,484 | |
| 370 gi|448814763|ref|NC_000962.3| 328642 . G <NON_REF> . . END=333584 GT:DP:GQ:MIN_DP:PL 0:63:99:4:0,135 | |
| 371 gi|448814763|ref|NC_000962.3| 333585 . C <NON_REF> . . END=333588 GT:DP:GQ:MIN_DP:PL 0:6:44:5:0,45 | |
| 372 gi|448814763|ref|NC_000962.3| 333589 . G <NON_REF> . . END=333589 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 373 gi|448814763|ref|NC_000962.3| 333590 . C <NON_REF> . . END=333636 GT:DP:GQ:MIN_DP:PL 0:9:99:7:0,135 | |
| 374 gi|448814763|ref|NC_000962.3| 333637 . A <NON_REF> . . END=333637 GT:DP:GQ:MIN_DP:PL 0:9:0:9:0,0 | |
| 375 gi|448814763|ref|NC_000962.3| 333638 . C <NON_REF> . . END=333639 GT:DP:GQ:MIN_DP:PL 0:10:99:9:0,315 | |
| 376 gi|448814763|ref|NC_000962.3| 333640 . G <NON_REF> . . END=333640 GT:DP:GQ:MIN_DP:PL 0:10:0:10:0,0 | |
| 377 gi|448814763|ref|NC_000962.3| 333641 . C <NON_REF> . . END=333641 GT:DP:GQ:MIN_DP:PL 0:10:9:10:0,9 | |
| 378 gi|448814763|ref|NC_000962.3| 333642 . T <NON_REF> . . END=333692 GT:DP:GQ:MIN_DP:PL 0:18:99:11:0,180 | |
| 379 gi|448814763|ref|NC_000962.3| 333693 . C <NON_REF> . . END=333707 GT:DP:GQ:MIN_DP:PL 0:5:89:2:0,81 | |
| 380 gi|448814763|ref|NC_000962.3| 333708 . T <NON_REF> . . END=333708 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,77 | |
| 381 gi|448814763|ref|NC_000962.3| 333709 . G <NON_REF> . . END=333712 GT:DP:GQ:MIN_DP:PL 0:2:83:2:0,83 | |
| 382 gi|448814763|ref|NC_000962.3| 333713 . A <NON_REF> . . END=333714 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,71 | |
| 383 gi|448814763|ref|NC_000962.3| 333715 . C <NON_REF> . . END=333716 GT:DP:GQ:MIN_DP:PL 0:2:83:2:0,82 | |
| 384 gi|448814763|ref|NC_000962.3| 333717 . T <NON_REF> . . END=333750 GT:DP:GQ:MIN_DP:PL 0:7:99:3:0,112 | |
| 385 gi|448814763|ref|NC_000962.3| 333751 . C <NON_REF> . . END=333756 GT:DP:GQ:MIN_DP:PL 0:7:89:7:0,90 | |
| 386 gi|448814763|ref|NC_000962.3| 333757 . C <NON_REF> . . END=333758 GT:DP:GQ:MIN_DP:PL 0:6:0:5:0,0 | |
| 387 gi|448814763|ref|NC_000962.3| 333759 . C <NON_REF> . . END=333766 GT:DP:GQ:MIN_DP:PL 0:3:44:3:0,45 | |
| 388 gi|448814763|ref|NC_000962.3| 333767 . G <NON_REF> . . END=333767 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 389 gi|448814763|ref|NC_000962.3| 333768 . C <NON_REF> . . END=333768 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 390 gi|448814763|ref|NC_000962.3| 333769 . C <NON_REF> . . END=333769 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 391 gi|448814763|ref|NC_000962.3| 333770 . G <NON_REF> . . END=333770 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 392 gi|448814763|ref|NC_000962.3| 333771 . G <NON_REF> . . END=333776 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 393 gi|448814763|ref|NC_000962.3| 333777 . C <NON_REF> . . END=333786 GT:DP:GQ:MIN_DP:PL 0:6:99:4:0,114 | |
| 394 gi|448814763|ref|NC_000962.3| 333787 . C <NON_REF> . . END=333787 GT:DP:GQ:MIN_DP:PL 0:7:96:7:0,96 | |
| 395 gi|448814763|ref|NC_000962.3| 333788 . G <NON_REF> . . END=333869 GT:DP:GQ:MIN_DP:PL 0:9:99:5:0,135 | |
| 396 gi|448814763|ref|NC_000962.3| 333870 . C <NON_REF> . . END=333883 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 397 gi|448814763|ref|NC_000962.3| 333884 . G <NON_REF> . . END=333890 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 398 gi|448814763|ref|NC_000962.3| 333891 . C <NON_REF> . . END=333891 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 399 gi|448814763|ref|NC_000962.3| 333892 . G <NON_REF> . . END=333892 GT:DP:GQ:MIN_DP:PL 0:1:0:1:0,0 | |
| 400 gi|448814763|ref|NC_000962.3| 333893 . G <NON_REF> . . END=333893 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 401 gi|448814763|ref|NC_000962.3| 333894 . A <NON_REF> . . END=333896 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 402 gi|448814763|ref|NC_000962.3| 333897 . C <NON_REF> . . END=333899 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 403 gi|448814763|ref|NC_000962.3| 333900 . A <NON_REF> . . END=333900 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 404 gi|448814763|ref|NC_000962.3| 333901 . A <NON_REF> . . END=333902 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 405 gi|448814763|ref|NC_000962.3| 333903 . A <NON_REF> . . END=333903 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 406 gi|448814763|ref|NC_000962.3| 333904 . G <NON_REF> . . END=333923 GT:DP:GQ:MIN_DP:PL 0:1:0:0:0,0 | |
| 407 gi|448814763|ref|NC_000962.3| 333924 . G <NON_REF> . . END=333924 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 408 gi|448814763|ref|NC_000962.3| 333925 . T <NON_REF> . . END=333926 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 409 gi|448814763|ref|NC_000962.3| 333927 . C <NON_REF> . . END=333927 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 410 gi|448814763|ref|NC_000962.3| 333928 . C <NON_REF> . . END=333928 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 411 gi|448814763|ref|NC_000962.3| 333929 . G <NON_REF> . . END=333929 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,80 | |
| 412 gi|448814763|ref|NC_000962.3| 333930 . C <NON_REF> . . END=333931 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 413 gi|448814763|ref|NC_000962.3| 333932 . G <NON_REF> . . END=334091 GT:DP:GQ:MIN_DP:PL 0:9:99:3:0,102 | |
| 414 gi|448814763|ref|NC_000962.3| 334092 . C <NON_REF> . . END=334093 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 415 gi|448814763|ref|NC_000962.3| 334094 . G <NON_REF> . . END=334096 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,131 | |
| 416 gi|448814763|ref|NC_000962.3| 334097 . G <NON_REF> . . END=334102 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 417 gi|448814763|ref|NC_000962.3| 334103 . G <NON_REF> . . END=334104 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,135 | |
| 418 gi|448814763|ref|NC_000962.3| 334105 . C <NON_REF> . . END=334105 GT:DP:GQ:MIN_DP:PL 0:5:92:5:0,92 | |
| 419 gi|448814763|ref|NC_000962.3| 334106 . G <NON_REF> . . END=334108 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,135 | |
| 420 gi|448814763|ref|NC_000962.3| 334109 . C <NON_REF> . . END=334110 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 421 gi|448814763|ref|NC_000962.3| 334111 . C <NON_REF> . . END=334163 GT:DP:GQ:MIN_DP:PL 0:5:99:3:0,107 | |
| 422 gi|448814763|ref|NC_000962.3| 334164 . C <NON_REF> . . END=334166 GT:DP:GQ:MIN_DP:PL 0:6:44:6:0,45 | |
| 423 gi|448814763|ref|NC_000962.3| 334167 . C <NON_REF> . . END=334172 GT:DP:GQ:MIN_DP:PL 0:7:89:7:0,90 | |
| 424 gi|448814763|ref|NC_000962.3| 334173 . C <NON_REF> . . END=334261 GT:DP:GQ:MIN_DP:PL 0:12:99:4:0,105 | |
| 425 gi|448814763|ref|NC_000962.3| 334262 . G <NON_REF> . . END=334262 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 426 gi|448814763|ref|NC_000962.3| 334263 . C <NON_REF> . . END=334284 GT:DP:GQ:MIN_DP:PL 0:5:99:3:0,121 | |
| 427 gi|448814763|ref|NC_000962.3| 334285 . C <NON_REF> . . END=334291 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 428 gi|448814763|ref|NC_000962.3| 334292 . G <NON_REF> . . END=334313 GT:DP:GQ:MIN_DP:PL 0:4:99:3:0,112 | |
| 429 gi|448814763|ref|NC_000962.3| 334314 . A <NON_REF> . . END=334314 GT:DP:GQ:MIN_DP:PL 0:3:90:3:0,90 | |
| 430 gi|448814763|ref|NC_000962.3| 334315 . A <NON_REF> . . END=334315 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,104 | |
| 431 gi|448814763|ref|NC_000962.3| 334316 . G <NON_REF> . . END=334325 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 432 gi|448814763|ref|NC_000962.3| 334326 . G <NON_REF> . . END=334326 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 433 gi|448814763|ref|NC_000962.3| 334327 . C <NON_REF> . . END=334327 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 434 gi|448814763|ref|NC_000962.3| 334328 . G <NON_REF> . . END=334328 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 435 gi|448814763|ref|NC_000962.3| 334329 . T <NON_REF> . . END=334330 GT:DP:GQ:MIN_DP:PL 0:2:64:2:0,62 | |
| 436 gi|448814763|ref|NC_000962.3| 334331 . G <NON_REF> . . END=334331 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 437 gi|448814763|ref|NC_000962.3| 334332 . C <NON_REF> . . END=334332 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 438 gi|448814763|ref|NC_000962.3| 334333 . C <NON_REF> . . END=334337 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 439 gi|448814763|ref|NC_000962.3| 334338 . C <NON_REF> . . END=334339 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 440 gi|448814763|ref|NC_000962.3| 334340 . C <NON_REF> . . END=334344 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 441 gi|448814763|ref|NC_000962.3| 334345 . C <NON_REF> . . END=334347 GT:DP:GQ:MIN_DP:PL 0:3:86:3:0,82 | |
| 442 gi|448814763|ref|NC_000962.3| 334348 . C <NON_REF> . . END=334401 GT:DP:GQ:MIN_DP:PL 0:11:99:6:0,135 | |
| 443 gi|448814763|ref|NC_000962.3| 334402 . C <NON_REF> . . END=334408 GT:DP:GQ:MIN_DP:PL 0:5:89:4:0,90 | |
| 444 gi|448814763|ref|NC_000962.3| 334409 . G <NON_REF> . . END=334409 GT:DP:GQ:MIN_DP:PL 0:5:40:5:0,41 | |
| 445 gi|448814763|ref|NC_000962.3| 334410 . A <NON_REF> . . END=334413 GT:DP:GQ:MIN_DP:PL 0:5:44:4:0,45 | |
| 446 gi|448814763|ref|NC_000962.3| 334414 . G <NON_REF> . . END=334414 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 447 gi|448814763|ref|NC_000962.3| 334415 . C <NON_REF> . . END=334415 GT:DP:GQ:MIN_DP:PL 0:4:12:4:0,12 | |
| 448 gi|448814763|ref|NC_000962.3| 334416 . A <NON_REF> . . END=334416 GT:DP:GQ:MIN_DP:PL 0:4:69:4:0,70 | |
| 449 gi|448814763|ref|NC_000962.3| 334417 . A <NON_REF> . . END=334419 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,114 | |
| 450 gi|448814763|ref|NC_000962.3| 334420 . A <NON_REF> . . END=334422 GT:DP:GQ:MIN_DP:PL 0:5:0:4:0,0 | |
| 451 gi|448814763|ref|NC_000962.3| 334423 . C <NON_REF> . . END=334653 GT:DP:GQ:MIN_DP:PL 0:17:99:5:0,104 | |
| 452 gi|448814763|ref|NC_000962.3| 334654 . A <NON_REF> . . END=334654 GT:DP:GQ:MIN_DP:PL 0:26:0:26:0,0 | |
| 453 gi|448814763|ref|NC_000962.3| 334655 . C <NON_REF> . . END=334658 GT:DP:GQ:MIN_DP:PL 0:26:99:25:0,315 | |
| 454 gi|448814763|ref|NC_000962.3| 334659 . C <NON_REF> . . END=334661 GT:DP:GQ:MIN_DP:PL 0:23:0:22:0,0 | |
| 455 gi|448814763|ref|NC_000962.3| 334662 . C <NON_REF> . . END=334662 GT:DP:GQ:MIN_DP:PL 0:25:99:25:0,360 | |
| 456 gi|448814763|ref|NC_000962.3| 334663 . C <NON_REF> . . END=334664 GT:DP:GQ:MIN_DP:PL 0:23:0:21:0,0 | |
| 457 gi|448814763|ref|NC_000962.3| 334665 . C <NON_REF> . . END=335143 GT:DP:GQ:MIN_DP:PL 0:14:99:6:0,135 | |
| 458 gi|448814763|ref|NC_000962.3| 335144 . G <NON_REF> . . END=335148 GT:DP:GQ:MIN_DP:PL 0:11:89:10:0,90 | |
| 459 gi|448814763|ref|NC_000962.3| 335149 . C <NON_REF> . . END=335327 GT:DP:GQ:MIN_DP:PL 0:9:99:5:0,135 | |
| 460 gi|448814763|ref|NC_000962.3| 335328 . T <NON_REF> . . END=335330 GT:DP:GQ:MIN_DP:PL 0:7:89:6:0,90 | |
| 461 gi|448814763|ref|NC_000962.3| 335331 . C <NON_REF> . . END=335331 GT:DP:GQ:MIN_DP:PL 0:6:44:6:0,45 | |
| 462 gi|448814763|ref|NC_000962.3| 335332 . C <NON_REF> . . END=335342 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 463 gi|448814763|ref|NC_000962.3| 335343 . C <NON_REF> . . END=335343 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 464 gi|448814763|ref|NC_000962.3| 335344 . C <NON_REF> . . END=335345 GT:DP:GQ:MIN_DP:PL 0:2:66:2:0,64 | |
| 465 gi|448814763|ref|NC_000962.3| 335346 . T <NON_REF> . . END=335346 GT:DP:GQ:MIN_DP:PL 0:2:50:2:0,50 | |
| 466 gi|448814763|ref|NC_000962.3| 335347 . C <NON_REF> . . END=335347 GT:DP:GQ:MIN_DP:PL 0:2:77:2:0,78 | |
| 467 gi|448814763|ref|NC_000962.3| 335348 . C <NON_REF> . . END=335359 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 468 gi|448814763|ref|NC_000962.3| 335360 . G <NON_REF> . . END=335360 GT:DP:GQ:MIN_DP:PL 0:1:17:1:0,18 | |
| 469 gi|448814763|ref|NC_000962.3| 335361 . A <NON_REF> . . END=335361 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 470 gi|448814763|ref|NC_000962.3| 335362 . A <NON_REF> . . END=335373 GT:DP:GQ:MIN_DP:PL 0:1:0:0:0,0 | |
| 471 gi|448814763|ref|NC_000962.3| 335374 . C <NON_REF> . . END=335374 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 472 gi|448814763|ref|NC_000962.3| 335375 . C <NON_REF> . . END=335375 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 473 gi|448814763|ref|NC_000962.3| 335376 . C <NON_REF> . . END=335376 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 474 gi|448814763|ref|NC_000962.3| 335377 . C <NON_REF> . . END=335378 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 475 gi|448814763|ref|NC_000962.3| 335379 . C <NON_REF> . . END=335379 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 476 gi|448814763|ref|NC_000962.3| 335380 . C <NON_REF> . . END=335380 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 477 gi|448814763|ref|NC_000962.3| 335381 . G <NON_REF> . . END=335381 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 478 gi|448814763|ref|NC_000962.3| 335382 . G <NON_REF> . . END=335382 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 479 gi|448814763|ref|NC_000962.3| 335383 . C <NON_REF> . . END=335383 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 480 gi|448814763|ref|NC_000962.3| 335384 . C <NON_REF> . . END=335386 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 481 gi|448814763|ref|NC_000962.3| 335387 . G <NON_REF> . . END=335390 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 482 gi|448814763|ref|NC_000962.3| 335391 . A <NON_REF> . . END=335391 GT:DP:GQ:MIN_DP:PL 0:2:67:2:0,68 | |
| 483 gi|448814763|ref|NC_000962.3| 335392 . C <NON_REF> . . END=335392 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 484 gi|448814763|ref|NC_000962.3| 335393 . T <NON_REF> . . END=335393 GT:DP:GQ:MIN_DP:PL 0:2:73:2:0,74 | |
| 485 gi|448814763|ref|NC_000962.3| 335394 . C <NON_REF> . . END=335403 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 486 gi|448814763|ref|NC_000962.3| 335404 . T <NON_REF> . . END=335404 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 487 gi|448814763|ref|NC_000962.3| 335405 . G <NON_REF> . . END=335405 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 488 gi|448814763|ref|NC_000962.3| 335406 . C <NON_REF> . . END=335406 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 489 gi|448814763|ref|NC_000962.3| 335407 . T <NON_REF> . . END=335407 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 490 gi|448814763|ref|NC_000962.3| 335408 . G <NON_REF> . . END=335408 GT:DP:GQ:MIN_DP:PL 0:1:42:1:0,43 | |
| 491 gi|448814763|ref|NC_000962.3| 335409 . T <NON_REF> . . END=335409 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 492 gi|448814763|ref|NC_000962.3| 335410 . C <NON_REF> . . END=335413 GT:DP:GQ:MIN_DP:PL 0:2:0:1:0,0 | |
| 493 gi|448814763|ref|NC_000962.3| 335414 . G <NON_REF> . . END=335414 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 494 gi|448814763|ref|NC_000962.3| 335415 . A <NON_REF> . . END=335415 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 495 gi|448814763|ref|NC_000962.3| 335416 . A <NON_REF> . . END=335416 GT:DP:GQ:MIN_DP:PL 0:2:4:2:0,4 | |
| 496 gi|448814763|ref|NC_000962.3| 335417 . C <NON_REF> . . END=335417 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 497 gi|448814763|ref|NC_000962.3| 335418 . C <NON_REF> . . END=335419 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 498 gi|448814763|ref|NC_000962.3| 335420 . G <NON_REF> . . END=335420 GT:DP:GQ:MIN_DP:PL 0:1:31:1:0,32 | |
| 499 gi|448814763|ref|NC_000962.3| 335421 . C <NON_REF> . . END=335421 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,80 | |
| 500 gi|448814763|ref|NC_000962.3| 335422 . C <NON_REF> . . END=335422 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 501 gi|448814763|ref|NC_000962.3| 335423 . A <NON_REF> . . END=335425 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 502 gi|448814763|ref|NC_000962.3| 335426 . C <NON_REF> . . END=335426 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 503 gi|448814763|ref|NC_000962.3| 335427 . C <NON_REF> . . END=335462 GT:DP:GQ:MIN_DP:PL 0:9:99:3:0,116 | |
| 504 gi|448814763|ref|NC_000962.3| 335463 . C <NON_REF> . . END=335465 GT:DP:GQ:MIN_DP:PL 0:9:89:9:0,90 | |
| 505 gi|448814763|ref|NC_000962.3| 335466 . C <NON_REF> . . END=335482 GT:DP:GQ:MIN_DP:PL 0:6:99:5:0,134 | |
| 506 gi|448814763|ref|NC_000962.3| 335483 . G <NON_REF> . . END=335489 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 507 gi|448814763|ref|NC_000962.3| 335490 . C <NON_REF> . . END=335496 GT:DP:GQ:MIN_DP:PL 0:4:44:2:0,45 | |
| 508 gi|448814763|ref|NC_000962.3| 335497 . C <NON_REF> . . END=335497 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 509 gi|448814763|ref|NC_000962.3| 335498 . C <NON_REF> . . END=335498 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 510 gi|448814763|ref|NC_000962.3| 335499 . C <NON_REF> . . END=335499 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 511 gi|448814763|ref|NC_000962.3| 335500 . C <NON_REF> . . END=335500 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 512 gi|448814763|ref|NC_000962.3| 335501 . A <NON_REF> . . END=335501 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 513 gi|448814763|ref|NC_000962.3| 335502 . C <NON_REF> . . END=335504 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 514 gi|448814763|ref|NC_000962.3| 335505 . G <NON_REF> . . END=335505 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 515 gi|448814763|ref|NC_000962.3| 335506 . A <NON_REF> . . END=335507 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 516 gi|448814763|ref|NC_000962.3| 335508 . C <NON_REF> . . END=335512 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 517 gi|448814763|ref|NC_000962.3| 335513 . G <NON_REF> . . END=335513 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 518 gi|448814763|ref|NC_000962.3| 335514 . A <NON_REF> . . END=335514 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 519 gi|448814763|ref|NC_000962.3| 335515 . C <NON_REF> . . END=335515 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 520 gi|448814763|ref|NC_000962.3| 335516 . C <NON_REF> . . END=335518 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 521 gi|448814763|ref|NC_000962.3| 335519 . G <NON_REF> . . END=335519 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 522 gi|448814763|ref|NC_000962.3| 335520 . C <NON_REF> . . END=335520 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 523 gi|448814763|ref|NC_000962.3| 335521 . C <NON_REF> . . END=335521 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 524 gi|448814763|ref|NC_000962.3| 335522 . G <NON_REF> . . END=335522 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 525 gi|448814763|ref|NC_000962.3| 335523 . G <NON_REF> . . END=335523 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 526 gi|448814763|ref|NC_000962.3| 335524 . T <NON_REF> . . END=335524 GT:DP:GQ:MIN_DP:PL 0:1:32:1:0,33 | |
| 527 gi|448814763|ref|NC_000962.3| 335525 . G <NON_REF> . . END=335525 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 528 gi|448814763|ref|NC_000962.3| 335526 . G <NON_REF> . . END=335527 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 529 gi|448814763|ref|NC_000962.3| 335528 . G <NON_REF> . . END=335528 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 530 gi|448814763|ref|NC_000962.3| 335529 . A <NON_REF> . . END=335529 GT:DP:GQ:MIN_DP:PL 0:2:68:2:0,69 | |
| 531 gi|448814763|ref|NC_000962.3| 335530 . A <NON_REF> . . END=335531 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,74 | |
| 532 gi|448814763|ref|NC_000962.3| 335532 . A <NON_REF> . . END=335533 GT:DP:GQ:MIN_DP:PL 0:2:69:2:0,70 | |
| 533 gi|448814763|ref|NC_000962.3| 335534 . C <NON_REF> . . END=335538 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 534 gi|448814763|ref|NC_000962.3| 335539 . C <NON_REF> . . END=335539 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 535 gi|448814763|ref|NC_000962.3| 335540 . G <NON_REF> . . END=335547 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 536 gi|448814763|ref|NC_000962.3| 335548 . C <NON_REF> . . END=335548 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 537 gi|448814763|ref|NC_000962.3| 335549 . G <NON_REF> . . END=335549 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 538 gi|448814763|ref|NC_000962.3| 335550 . G <NON_REF> . . END=335552 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 539 gi|448814763|ref|NC_000962.3| 335553 . C <NON_REF> . . END=335555 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 540 gi|448814763|ref|NC_000962.3| 335556 . C <NON_REF> . . END=335556 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 541 gi|448814763|ref|NC_000962.3| 335557 . C <NON_REF> . . END=335557 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 542 gi|448814763|ref|NC_000962.3| 335558 . C <NON_REF> . . END=335558 GT:DP:GQ:MIN_DP:PL 0:2:77:2:0,78 | |
| 543 gi|448814763|ref|NC_000962.3| 335559 . G <NON_REF> . . END=335562 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 544 gi|448814763|ref|NC_000962.3| 335563 . C <NON_REF> . . END=335564 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,75 | |
| 545 gi|448814763|ref|NC_000962.3| 335565 . C <NON_REF> . . END=335567 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,116 | |
| 546 gi|448814763|ref|NC_000962.3| 335568 . A <NON_REF> . . END=335568 GT:DP:GQ:MIN_DP:PL 0:3:93:3:0,93 | |
| 547 gi|448814763|ref|NC_000962.3| 335569 . G <NON_REF> . . END=335572 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,111 | |
| 548 gi|448814763|ref|NC_000962.3| 335573 . A <NON_REF> . . END=335573 GT:DP:GQ:MIN_DP:PL 0:3:86:3:0,86 | |
| 549 gi|448814763|ref|NC_000962.3| 335574 . C <NON_REF> . . END=335605 GT:DP:GQ:MIN_DP:PL 0:8:99:3:0,106 | |
| 550 gi|448814763|ref|NC_000962.3| 335606 . T <NON_REF> . . END=335606 GT:DP:GQ:MIN_DP:PL 0:9:85:9:0,85 | |
| 551 gi|448814763|ref|NC_000962.3| 335607 . C <NON_REF> . . END=335635 GT:DP:GQ:MIN_DP:PL 0:10:99:6:0,135 | |
| 552 gi|448814763|ref|NC_000962.3| 335636 . G <NON_REF> . . END=335636 GT:DP:GQ:MIN_DP:PL 0:5:44:5:0,45 | |
| 553 gi|448814763|ref|NC_000962.3| 335637 . C <NON_REF> . . END=335654 GT:DP:GQ:MIN_DP:PL 0:3:0:1:0,0 | |
| 554 gi|448814763|ref|NC_000962.3| 335655 . C <NON_REF> . . END=335656 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 555 gi|448814763|ref|NC_000962.3| 335657 . G <NON_REF> . . END=335657 GT:DP:GQ:MIN_DP:PL 0:2:16:2:0,16 | |
| 556 gi|448814763|ref|NC_000962.3| 335658 . C <NON_REF> . . END=335665 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 557 gi|448814763|ref|NC_000962.3| 335666 . G <NON_REF> . . END=335667 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 558 gi|448814763|ref|NC_000962.3| 335668 . C <NON_REF> . . END=335668 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 559 gi|448814763|ref|NC_000962.3| 335669 . C <NON_REF> . . END=335670 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 560 gi|448814763|ref|NC_000962.3| 335671 . T <NON_REF> . . END=335671 GT:DP:GQ:MIN_DP:PL 0:1:22:1:0,23 | |
| 561 gi|448814763|ref|NC_000962.3| 335672 . G <NON_REF> . . END=335672 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 562 gi|448814763|ref|NC_000962.3| 335673 . A <NON_REF> . . END=335673 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 563 gi|448814763|ref|NC_000962.3| 335674 . G <NON_REF> . . END=335674 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 564 gi|448814763|ref|NC_000962.3| 335675 . G <NON_REF> . . END=335675 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 565 gi|448814763|ref|NC_000962.3| 335676 . G <NON_REF> . . END=335676 GT:DP:GQ:MIN_DP:PL 0:1:31:1:0,32 | |
| 566 gi|448814763|ref|NC_000962.3| 335677 . C <NON_REF> . . END=335677 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 567 gi|448814763|ref|NC_000962.3| 335678 . T <NON_REF> . . END=335678 GT:DP:GQ:MIN_DP:PL 0:1:29:1:0,30 | |
| 568 gi|448814763|ref|NC_000962.3| 335679 . A <NON_REF> . . END=335687 GT:DP:GQ:MIN_DP:PL 0:1:0:1:0,0 | |
| 569 gi|448814763|ref|NC_000962.3| 335688 . C <NON_REF> . . END=335688 GT:DP:GQ:MIN_DP:PL 0:3:44:3:0,45 | |
| 570 gi|448814763|ref|NC_000962.3| 335689 . C <NON_REF> . . END=335689 GT:DP:GQ:MIN_DP:PL 0:3:40:3:0,41 | |
| 571 gi|448814763|ref|NC_000962.3| 335690 . G <NON_REF> . . END=335690 GT:DP:GQ:MIN_DP:PL 0:3:44:3:0,45 | |
| 572 gi|448814763|ref|NC_000962.3| 335691 . C <NON_REF> . . END=335691 GT:DP:GQ:MIN_DP:PL 0:3:28:3:0,29 | |
| 573 gi|448814763|ref|NC_000962.3| 335692 . C <NON_REF> . . END=335692 GT:DP:GQ:MIN_DP:PL 0:3:20:3:0,21 | |
| 574 gi|448814763|ref|NC_000962.3| 335693 . G <NON_REF> . . END=335693 GT:DP:GQ:MIN_DP:PL 0:3:44:3:0,45 | |
| 575 gi|448814763|ref|NC_000962.3| 335694 . G <NON_REF> . . END=335694 GT:DP:GQ:MIN_DP:PL 0:4:62:4:0,62 | |
| 576 gi|448814763|ref|NC_000962.3| 335695 . C <NON_REF> . . END=335695 GT:DP:GQ:MIN_DP:PL 0:5:42:5:0,43 | |
| 577 gi|448814763|ref|NC_000962.3| 335696 . G <NON_REF> . . END=335696 GT:DP:GQ:MIN_DP:PL 0:5:38:5:0,39 | |
| 578 gi|448814763|ref|NC_000962.3| 335697 . C <NON_REF> . . END=335698 GT:DP:GQ:MIN_DP:PL 0:5:43:5:0,44 | |
| 579 gi|448814763|ref|NC_000962.3| 335699 . G <NON_REF> . . END=335699 GT:DP:GQ:MIN_DP:PL 0:5:50:5:0,51 | |
| 580 gi|448814763|ref|NC_000962.3| 335700 . C <NON_REF> . . END=335818 GT:DP:GQ:MIN_DP:PL 0:11:99:5:0,103 | |
| 581 gi|448814763|ref|NC_000962.3| 335819 . G <NON_REF> . . END=335824 GT:DP:GQ:MIN_DP:PL 0:6:89:5:0,90 | |
| 582 gi|448814763|ref|NC_000962.3| 335825 . G <NON_REF> . . END=335828 GT:DP:GQ:MIN_DP:PL 0:5:44:5:0,45 | |
| 583 gi|448814763|ref|NC_000962.3| 335829 . C <NON_REF> . . END=335831 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 584 gi|448814763|ref|NC_000962.3| 335832 . C <NON_REF> . . END=335832 GT:DP:GQ:MIN_DP:PL 0:5:32:5:0,33 | |
| 585 gi|448814763|ref|NC_000962.3| 335833 . C <NON_REF> . . END=335833 GT:DP:GQ:MIN_DP:PL 0:5:89:5:0,90 | |
| 586 gi|448814763|ref|NC_000962.3| 335834 . G <NON_REF> . . END=335834 GT:DP:GQ:MIN_DP:PL 0:5:36:5:0,37 | |
| 587 gi|448814763|ref|NC_000962.3| 335835 . G <NON_REF> . . END=335835 GT:DP:GQ:MIN_DP:PL 0:6:72:6:0,73 | |
| 588 gi|448814763|ref|NC_000962.3| 335836 . C <NON_REF> . . END=335839 GT:DP:GQ:MIN_DP:PL 0:6:99:6:0,135 | |
| 589 gi|448814763|ref|NC_000962.3| 335840 . G <NON_REF> . . END=335840 GT:DP:GQ:MIN_DP:PL 0:9:48:9:0,49 | |
| 590 gi|448814763|ref|NC_000962.3| 335841 . C <NON_REF> . . END=335841 GT:DP:GQ:MIN_DP:PL 0:10:73:10:0,74 | |
| 591 gi|448814763|ref|NC_000962.3| 335842 . C <NON_REF> . . END=335842 GT:DP:GQ:MIN_DP:PL 0:10:96:10:0,97 | |
| 592 gi|448814763|ref|NC_000962.3| 335843 . G <NON_REF> . . END=335843 GT:DP:GQ:MIN_DP:PL 0:10:72:10:0,73 | |
| 593 gi|448814763|ref|NC_000962.3| 335844 . T <NON_REF> . . END=335844 GT:DP:GQ:MIN_DP:PL 0:10:39:10:0,40 | |
| 594 gi|448814763|ref|NC_000962.3| 335845 . T <NON_REF> . . END=335845 GT:DP:GQ:MIN_DP:PL 0:10:41:10:0,42 | |
| 595 gi|448814763|ref|NC_000962.3| 335846 . G <NON_REF> . . END=335849 GT:DP:GQ:MIN_DP:PL 0:11:99:10:0,360 | |
| 596 gi|448814763|ref|NC_000962.3| 335850 . C <NON_REF> . . END=335850 GT:DP:GQ:MIN_DP:PL 0:11:33:11:0,34 | |
| 597 gi|448814763|ref|NC_000962.3| 335851 . C <NON_REF> . . END=335851 GT:DP:GQ:MIN_DP:PL 0:11:61:11:0,62 | |
| 598 gi|448814763|ref|NC_000962.3| 335852 . G <NON_REF> . . END=335852 GT:DP:GQ:MIN_DP:PL 0:10:99:10:0,383 | |
| 599 gi|448814763|ref|NC_000962.3| 335853 . G <NON_REF> . . END=335853 GT:DP:GQ:MIN_DP:PL 0:10:0:10:0,0 | |
| 600 gi|448814763|ref|NC_000962.3| 335854 . C <NON_REF> . . END=335854 GT:DP:GQ:MIN_DP:PL 0:10:99:10:0,404 | |
| 601 gi|448814763|ref|NC_000962.3| 335855 . G <NON_REF> . . END=335855 GT:DP:GQ:MIN_DP:PL 0:10:0:10:0,0 | |
| 602 gi|448814763|ref|NC_000962.3| 335856 . C <NON_REF> . . END=335857 GT:DP:GQ:MIN_DP:PL 0:10:99:10:0,388 | |
| 603 gi|448814763|ref|NC_000962.3| 335858 . G <NON_REF> . . END=335858 GT:DP:GQ:MIN_DP:PL 0:10:0:10:0,0 | |
| 604 gi|448814763|ref|NC_000962.3| 335859 . C <NON_REF> . . END=335859 GT:DP:GQ:MIN_DP:PL 0:12:86:12:0,87 | |
| 605 gi|448814763|ref|NC_000962.3| 335860 . C <NON_REF> . . END=335861 GT:DP:GQ:MIN_DP:PL 0:12:99:12:0,444 | |
| 606 gi|448814763|ref|NC_000962.3| 335862 . T <NON_REF> . . END=335862 GT:DP:GQ:MIN_DP:PL 0:13:61:13:0,61 | |
| 607 gi|448814763|ref|NC_000962.3| 335863 . T <NON_REF> . . END=335863 GT:DP:GQ:MIN_DP:PL 0:14:40:14:0,41 | |
| 608 gi|448814763|ref|NC_000962.3| 335864 . G <NON_REF> . . END=335864 GT:DP:GQ:MIN_DP:PL 0:14:99:14:0,540 | |
| 609 gi|448814763|ref|NC_000962.3| 335865 . A <NON_REF> . . END=335865 GT:DP:GQ:MIN_DP:PL 0:14:51:14:0,51 | |
| 610 gi|448814763|ref|NC_000962.3| 335866 . C <NON_REF> . . END=335884 GT:DP:GQ:MIN_DP:PL 0:16:99:14:0,99 | |
| 611 gi|448814763|ref|NC_000962.3| 335885 . T <NON_REF> . . END=335885 GT:DP:GQ:MIN_DP:PL 0:17:57:17:0,57 | |
| 612 gi|448814763|ref|NC_000962.3| 335886 . C <NON_REF> . . END=335970 GT:DP:GQ:MIN_DP:PL 0:29:99:16:0,157 | |
| 613 gi|448814763|ref|NC_000962.3| 335972 . C <NON_REF> . . END=336004 GT:DP:GQ:MIN_DP:PL 0:51:99:29:0,1080 | |
| 614 gi|448814763|ref|NC_000962.3| 336005 . G <NON_REF> . . END=336005 GT:DP:GQ:MIN_DP:PL 0:61:89:61:0,89 | |
| 615 gi|448814763|ref|NC_000962.3| 336006 . A <NON_REF> . . END=336046 GT:DP:GQ:MIN_DP:PL 0:73:99:61:0,1710 | |
| 616 gi|448814763|ref|NC_000962.3| 336048 . G <NON_REF> . . END=336049 GT:DP:GQ:MIN_DP:PL 0:59:99:53:0,1800 | |
| 617 gi|448814763|ref|NC_000962.3| 336051 . T <NON_REF> . . END=336052 GT:DP:GQ:MIN_DP:PL 0:50:99:50:0,1620 | |
| 618 gi|448814763|ref|NC_000962.3| 336054 . G <NON_REF> . . END=336190 GT:DP:GQ:MIN_DP:PL 0:44:99:35:0,389 | |
| 619 gi|448814763|ref|NC_000962.3| 336192 . A <NON_REF> . . END=336616 GT:DP:GQ:MIN_DP:PL 0:81:99:22:0,212 | |
| 620 gi|448814763|ref|NC_000962.3| 336617 . G <NON_REF> . . END=336617 GT:DP:GQ:MIN_DP:PL 0:19:0:19:0,0 | |
| 621 gi|448814763|ref|NC_000962.3| 336618 . G <NON_REF> . . END=336619 GT:DP:GQ:MIN_DP:PL 0:20:99:19:0,630 | |
| 622 gi|448814763|ref|NC_000962.3| 336620 . T <NON_REF> . . END=336620 GT:DP:GQ:MIN_DP:PL 0:20:0:20:0,0 | |
| 623 gi|448814763|ref|NC_000962.3| 336621 . G <NON_REF> . . END=336668 GT:DP:GQ:MIN_DP:PL 0:14:99:10:0,135 | |
| 624 gi|448814763|ref|NC_000962.3| 336669 . A <NON_REF> . . END=336670 GT:DP:GQ:MIN_DP:PL 0:10:89:9:0,90 | |
| 625 gi|448814763|ref|NC_000962.3| 336671 . C <NON_REF> . . END=336695 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 626 gi|448814763|ref|NC_000962.3| 336696 . T <NON_REF> . . END=336697 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 627 gi|448814763|ref|NC_000962.3| 336698 . C <NON_REF> . . END=336698 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 628 gi|448814763|ref|NC_000962.3| 336699 . C <NON_REF> . . END=336699 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 629 gi|448814763|ref|NC_000962.3| 336700 . C <NON_REF> . . END=336700 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,121 | |
| 630 gi|448814763|ref|NC_000962.3| 336701 . A <NON_REF> . . END=336701 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 631 gi|448814763|ref|NC_000962.3| 336702 . C <NON_REF> . . END=336702 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,120 | |
| 632 gi|448814763|ref|NC_000962.3| 336703 . C <NON_REF> . . END=336703 GT:DP:GQ:MIN_DP:PL 0:3:45:3:0,46 | |
| 633 gi|448814763|ref|NC_000962.3| 336704 . G <NON_REF> . . END=336706 GT:DP:GQ:MIN_DP:PL 0:4:99:3:0,118 | |
| 634 gi|448814763|ref|NC_000962.3| 336707 . G <NON_REF> . . END=336708 GT:DP:GQ:MIN_DP:PL 0:4:0:4:0,0 | |
| 635 gi|448814763|ref|NC_000962.3| 336709 . C <NON_REF> . . END=336709 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,159 | |
| 636 gi|448814763|ref|NC_000962.3| 336710 . A <NON_REF> . . END=336710 GT:DP:GQ:MIN_DP:PL 0:5:0:5:0,0 | |
| 637 gi|448814763|ref|NC_000962.3| 336711 . G <NON_REF> . . END=336762 GT:DP:GQ:MIN_DP:PL 0:11:99:5:0,104 | |
| 638 gi|448814763|ref|NC_000962.3| 336763 . T <NON_REF> . . END=336771 GT:DP:GQ:MIN_DP:PL 0:16:44:13:0,45 | |
| 639 gi|448814763|ref|NC_000962.3| 336774 . C <NON_REF> . . END=336779 GT:DP:GQ:MIN_DP:PL 0:11:0:7:0,0 | |
| 640 gi|448814763|ref|NC_000962.3| 336783 . C <NON_REF> . . END=336784 GT:DP:GQ:MIN_DP:PL 0:5:0:4:0,0 | |
| 641 gi|448814763|ref|NC_000962.3| 336785 . G <NON_REF> . . END=336787 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 642 gi|448814763|ref|NC_000962.3| 336788 . G <NON_REF> . . END=336789 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 643 gi|448814763|ref|NC_000962.3| 336790 . T <NON_REF> . . END=336790 GT:DP:GQ:MIN_DP:PL 0:3:44:3:0,45 | |
| 644 gi|448814763|ref|NC_000962.3| 336791 . G <NON_REF> . . END=336791 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 645 gi|448814763|ref|NC_000962.3| 336792 . C <NON_REF> . . END=336792 GT:DP:GQ:MIN_DP:PL 0:4:11:4:0,11 | |
| 646 gi|448814763|ref|NC_000962.3| 336793 . T <NON_REF> . . END=336793 GT:DP:GQ:MIN_DP:PL 0:5:17:5:0,18 | |
| 647 gi|448814763|ref|NC_000962.3| 336794 . G <NON_REF> . . END=336798 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,103 | |
| 648 gi|448814763|ref|NC_000962.3| 336799 . T <NON_REF> . . END=336799 GT:DP:GQ:MIN_DP:PL 0:5:80:5:0,80 | |
| 649 gi|448814763|ref|NC_000962.3| 336800 . G <NON_REF> . . END=336812 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,109 | |
| 650 gi|448814763|ref|NC_000962.3| 336813 . C <NON_REF> . . END=336822 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 651 gi|448814763|ref|NC_000962.3| 336823 . C <NON_REF> . . END=336829 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,104 | |
| 652 gi|448814763|ref|NC_000962.3| 336830 . G <NON_REF> . . END=336836 GT:DP:GQ:MIN_DP:PL 0:3:89:2:0,81 | |
| 653 gi|448814763|ref|NC_000962.3| 336837 . C <NON_REF> . . END=336837 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 654 gi|448814763|ref|NC_000962.3| 336838 . C <NON_REF> . . END=336842 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 655 gi|448814763|ref|NC_000962.3| 336843 . A <NON_REF> . . END=336843 GT:DP:GQ:MIN_DP:PL 0:2:71:2:0,72 | |
| 656 gi|448814763|ref|NC_000962.3| 336844 . G <NON_REF> . . END=336844 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 657 gi|448814763|ref|NC_000962.3| 336845 . C <NON_REF> . . END=336845 GT:DP:GQ:MIN_DP:PL 0:2:71:2:0,72 | |
| 658 gi|448814763|ref|NC_000962.3| 336846 . G <NON_REF> . . END=336846 GT:DP:GQ:MIN_DP:PL 0:2:83:2:0,84 | |
| 659 gi|448814763|ref|NC_000962.3| 336847 . A <NON_REF> . . END=336857 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,111 | |
| 660 gi|448814763|ref|NC_000962.3| 336858 . C <NON_REF> . . END=336864 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 661 gi|448814763|ref|NC_000962.3| 336865 . T <NON_REF> . . END=336874 GT:DP:GQ:MIN_DP:PL 0:4:99:3:0,106 | |
| 662 gi|448814763|ref|NC_000962.3| 336875 . C <NON_REF> . . END=336882 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 663 gi|448814763|ref|NC_000962.3| 336883 . T <NON_REF> . . END=336883 GT:DP:GQ:MIN_DP:PL 0:4:66:4:0,67 | |
| 664 gi|448814763|ref|NC_000962.3| 336884 . C <NON_REF> . . END=336889 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 665 gi|448814763|ref|NC_000962.3| 336890 . G <NON_REF> . . END=336890 GT:DP:GQ:MIN_DP:PL 0:3:53:3:0,54 | |
| 666 gi|448814763|ref|NC_000962.3| 336891 . A <NON_REF> . . END=336891 GT:DP:GQ:MIN_DP:PL 0:3:22:3:0,22 | |
| 667 gi|448814763|ref|NC_000962.3| 336892 . C <NON_REF> . . END=336892 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 668 gi|448814763|ref|NC_000962.3| 336893 . A <NON_REF> . . END=336893 GT:DP:GQ:MIN_DP:PL 0:3:40:3:0,41 | |
| 669 gi|448814763|ref|NC_000962.3| 336894 . T <NON_REF> . . END=336894 GT:DP:GQ:MIN_DP:PL 0:3:37:3:0,38 | |
| 670 gi|448814763|ref|NC_000962.3| 336895 . T <NON_REF> . . END=336895 GT:DP:GQ:MIN_DP:PL 0:3:40:3:0,41 | |
| 671 gi|448814763|ref|NC_000962.3| 336896 . T <NON_REF> . . END=336896 GT:DP:GQ:MIN_DP:PL 0:3:49:3:0,50 | |
| 672 gi|448814763|ref|NC_000962.3| 336897 . A <NON_REF> . . END=336897 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 673 gi|448814763|ref|NC_000962.3| 336898 . A <NON_REF> . . END=336898 GT:DP:GQ:MIN_DP:PL 0:4:71:4:0,72 | |
| 674 gi|448814763|ref|NC_000962.3| 336899 . G <NON_REF> . . END=336899 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,135 | |
| 675 gi|448814763|ref|NC_000962.3| 336900 . G <NON_REF> . . END=336900 GT:DP:GQ:MIN_DP:PL 0:4:84:4:0,85 | |
| 676 gi|448814763|ref|NC_000962.3| 336901 . C <NON_REF> . . END=336905 GT:DP:GQ:MIN_DP:PL 0:4:44:4:0,45 | |
| 677 gi|448814763|ref|NC_000962.3| 336906 . C <NON_REF> . . END=336916 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 678 gi|448814763|ref|NC_000962.3| 336917 . G <NON_REF> . . END=336966 GT:DP:GQ:MIN_DP:PL 0:4:99:3:0,117 | |
| 679 gi|448814763|ref|NC_000962.3| 336967 . T <NON_REF> . . END=336971 GT:DP:GQ:MIN_DP:PL 0:4:44:4:0,45 | |
| 680 gi|448814763|ref|NC_000962.3| 336972 . C <NON_REF> . . END=336983 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 681 gi|448814763|ref|NC_000962.3| 336984 . A <NON_REF> . . END=336984 GT:DP:GQ:MIN_DP:PL 0:2:41:2:0,41 | |
| 682 gi|448814763|ref|NC_000962.3| 336985 . A <NON_REF> . . END=336985 GT:DP:GQ:MIN_DP:PL 0:2:73:2:0,74 | |
| 683 gi|448814763|ref|NC_000962.3| 336986 . G <NON_REF> . . END=336986 GT:DP:GQ:MIN_DP:PL 0:2:64:2:0,64 | |
| 684 gi|448814763|ref|NC_000962.3| 336987 . G <NON_REF> . . END=337001 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 685 gi|448814763|ref|NC_000962.3| 337002 . C <NON_REF> . . END=337006 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 686 gi|448814763|ref|NC_000962.3| 337007 . A <NON_REF> . . END=337007 GT:DP:GQ:MIN_DP:PL 0:2:69:2:0,70 | |
| 687 gi|448814763|ref|NC_000962.3| 337008 . G <NON_REF> . . END=337008 GT:DP:GQ:MIN_DP:PL 0:2:71:2:0,72 | |
| 688 gi|448814763|ref|NC_000962.3| 337009 . C <NON_REF> . . END=337009 GT:DP:GQ:MIN_DP:PL 0:2:82:2:0,83 | |
| 689 gi|448814763|ref|NC_000962.3| 337010 . A <NON_REF> . . END=337010 GT:DP:GQ:MIN_DP:PL 0:2:62:2:0,63 | |
| 690 gi|448814763|ref|NC_000962.3| 337011 . C <NON_REF> . . END=337015 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,81 | |
| 691 gi|448814763|ref|NC_000962.3| 337016 . A <NON_REF> . . END=337016 GT:DP:GQ:MIN_DP:PL 0:2:74:2:0,75 | |
| 692 gi|448814763|ref|NC_000962.3| 337017 . G <NON_REF> . . END=337018 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,106 | |
| 693 gi|448814763|ref|NC_000962.3| 337019 . G <NON_REF> . . END=337019 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 694 gi|448814763|ref|NC_000962.3| 337020 . C <NON_REF> . . END=337044 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,126 | |
| 695 gi|448814763|ref|NC_000962.3| 337045 . G <NON_REF> . . END=337045 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 696 gi|448814763|ref|NC_000962.3| 337046 . C <NON_REF> . . END=337048 GT:DP:GQ:MIN_DP:PL 0:6:99:5:0,135 | |
| 697 gi|448814763|ref|NC_000962.3| 337049 . C <NON_REF> . . END=337059 GT:DP:GQ:MIN_DP:PL 0:6:89:3:0,90 | |
| 698 gi|448814763|ref|NC_000962.3| 337060 . C <NON_REF> . . END=337060 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 699 gi|448814763|ref|NC_000962.3| 337061 . G <NON_REF> . . END=337061 GT:DP:GQ:MIN_DP:PL 0:2:58:2:0,58 | |
| 700 gi|448814763|ref|NC_000962.3| 337062 . T <NON_REF> . . END=337062 GT:DP:GQ:MIN_DP:PL 0:2:49:2:0,49 | |
| 701 gi|448814763|ref|NC_000962.3| 337063 . C <NON_REF> . . END=337063 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 702 gi|448814763|ref|NC_000962.3| 337064 . G <NON_REF> . . END=337064 GT:DP:GQ:MIN_DP:PL 0:2:68:2:0,69 | |
| 703 gi|448814763|ref|NC_000962.3| 337065 . G <NON_REF> . . END=337065 GT:DP:GQ:MIN_DP:PL 0:2:51:2:0,51 | |
| 704 gi|448814763|ref|NC_000962.3| 337066 . C <NON_REF> . . END=337066 GT:DP:GQ:MIN_DP:PL 0:2:58:2:0,58 | |
| 705 gi|448814763|ref|NC_000962.3| 337067 . G <NON_REF> . . END=337067 GT:DP:GQ:MIN_DP:PL 0:2:49:2:0,49 | |
| 706 gi|448814763|ref|NC_000962.3| 337068 . C <NON_REF> . . END=337068 GT:DP:GQ:MIN_DP:PL 0:2:66:2:0,67 | |
| 707 gi|448814763|ref|NC_000962.3| 337069 . C <NON_REF> . . END=337069 GT:DP:GQ:MIN_DP:PL 0:2:52:2:0,52 | |
| 708 gi|448814763|ref|NC_000962.3| 337070 . G <NON_REF> . . END=337070 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 709 gi|448814763|ref|NC_000962.3| 337071 . A <NON_REF> . . END=337071 GT:DP:GQ:MIN_DP:PL 0:2:58:2:0,58 | |
| 710 gi|448814763|ref|NC_000962.3| 337072 . G <NON_REF> . . END=337077 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 711 gi|448814763|ref|NC_000962.3| 337078 . C <NON_REF> . . END=337079 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 712 gi|448814763|ref|NC_000962.3| 337080 . G <NON_REF> . . END=337080 GT:DP:GQ:MIN_DP:PL 0:3:57:3:0,57 | |
| 713 gi|448814763|ref|NC_000962.3| 337081 . C <NON_REF> . . END=337081 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 714 gi|448814763|ref|NC_000962.3| 337082 . C <NON_REF> . . END=337082 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,80 | |
| 715 gi|448814763|ref|NC_000962.3| 337083 . C <NON_REF> . . END=337084 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,81 | |
| 716 gi|448814763|ref|NC_000962.3| 337085 . G <NON_REF> . . END=337102 GT:DP:GQ:MIN_DP:PL 0:4:99:3:0,100 | |
| 717 gi|448814763|ref|NC_000962.3| 337103 . G <NON_REF> . . END=337114 GT:DP:GQ:MIN_DP:PL 0:4:89:2:0,83 | |
| 718 gi|448814763|ref|NC_000962.3| 337115 . G <NON_REF> . . END=337116 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,75 | |
| 719 gi|448814763|ref|NC_000962.3| 337117 . T <NON_REF> . . END=337129 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 720 gi|448814763|ref|NC_000962.3| 337130 . G <NON_REF> . . END=337132 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 721 gi|448814763|ref|NC_000962.3| 337133 . A <NON_REF> . . END=337133 GT:DP:GQ:MIN_DP:PL 0:1:34:1:0,35 | |
| 722 gi|448814763|ref|NC_000962.3| 337134 . T <NON_REF> . . END=337134 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 723 gi|448814763|ref|NC_000962.3| 337135 . T <NON_REF> . . END=337135 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 724 gi|448814763|ref|NC_000962.3| 337136 . C <NON_REF> . . END=337138 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 725 gi|448814763|ref|NC_000962.3| 337139 . G <NON_REF> . . END=337139 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 726 gi|448814763|ref|NC_000962.3| 337140 . C <NON_REF> . . END=337141 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,81 | |
| 727 gi|448814763|ref|NC_000962.3| 337142 . A <NON_REF> . . END=337144 GT:DP:GQ:MIN_DP:PL 0:2:74:2:0,75 | |
| 728 gi|448814763|ref|NC_000962.3| 337145 . C <NON_REF> . . END=337156 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 729 gi|448814763|ref|NC_000962.3| 337157 . G <NON_REF> . . END=337157 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 730 gi|448814763|ref|NC_000962.3| 337158 . C <NON_REF> . . END=337159 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 731 gi|448814763|ref|NC_000962.3| 337160 . G <NON_REF> . . END=337160 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 732 gi|448814763|ref|NC_000962.3| 337161 . G <NON_REF> . . END=337161 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 733 gi|448814763|ref|NC_000962.3| 337162 . C <NON_REF> . . END=337216 GT:DP:GQ:MIN_DP:PL 0:8:99:3:0,119 | |
| 734 gi|448814763|ref|NC_000962.3| 337217 . A <NON_REF> . . END=337217 GT:DP:GQ:MIN_DP:PL 0:3:97:3:0,97 | |
| 735 gi|448814763|ref|NC_000962.3| 337218 . C <NON_REF> . . END=337221 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,106 | |
| 736 gi|448814763|ref|NC_000962.3| 337222 . T <NON_REF> . . END=337228 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 737 gi|448814763|ref|NC_000962.3| 337229 . T <NON_REF> . . END=337230 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,135 | |
| 738 gi|448814763|ref|NC_000962.3| 337231 . G <NON_REF> . . END=337245 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 739 gi|448814763|ref|NC_000962.3| 337246 . G <NON_REF> . . END=337370 GT:DP:GQ:MIN_DP:PL 0:5:99:4:0,112 | |
| 740 gi|448814763|ref|NC_000962.3| 337371 . C <NON_REF> . . END=337382 GT:DP:GQ:MIN_DP:PL 0:4:0:3:0,0 | |
| 741 gi|448814763|ref|NC_000962.3| 337383 . C <NON_REF> . . END=337388 GT:DP:GQ:MIN_DP:PL 0:5:44:4:0,45 | |
| 742 gi|448814763|ref|NC_000962.3| 337389 . C <NON_REF> . . END=337393 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 743 gi|448814763|ref|NC_000962.3| 337394 . T <NON_REF> . . END=337395 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,73 | |
| 744 gi|448814763|ref|NC_000962.3| 337396 . G <NON_REF> . . END=337396 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 745 gi|448814763|ref|NC_000962.3| 337397 . G <NON_REF> . . END=337397 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 746 gi|448814763|ref|NC_000962.3| 337398 . C <NON_REF> . . END=337400 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,116 | |
| 747 gi|448814763|ref|NC_000962.3| 337401 . G <NON_REF> . . END=337401 GT:DP:GQ:MIN_DP:PL 0:3:98:3:0,98 | |
| 748 gi|448814763|ref|NC_000962.3| 337402 . T <NON_REF> . . END=337406 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,106 | |
| 749 gi|448814763|ref|NC_000962.3| 337407 . C <NON_REF> . . END=337408 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 750 gi|448814763|ref|NC_000962.3| 337409 . G <NON_REF> . . END=337726 GT:DP:GQ:MIN_DP:PL 0:14:99:4:0,133 | |
| 751 gi|448814763|ref|NC_000962.3| 337727 . G <NON_REF> . . END=337733 GT:DP:GQ:MIN_DP:PL 0:7:89:4:0,90 | |
| 752 gi|448814763|ref|NC_000962.3| 337734 . G <NON_REF> . . END=337741 GT:DP:GQ:MIN_DP:PL 0:3:0:2:0,0 | |
| 753 gi|448814763|ref|NC_000962.3| 337742 . G <NON_REF> . . END=337743 GT:DP:GQ:MIN_DP:PL 0:5:99:5:0,135 | |
| 754 gi|448814763|ref|NC_000962.3| 337744 . G <NON_REF> . . END=337745 GT:DP:GQ:MIN_DP:PL 0:3:86:3:0,85 | |
| 755 gi|448814763|ref|NC_000962.3| 337746 . G <NON_REF> . . END=337746 GT:DP:GQ:MIN_DP:PL 0:3:94:3:0,94 | |
| 756 gi|448814763|ref|NC_000962.3| 337747 . C <NON_REF> . . END=337747 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,111 | |
| 757 gi|448814763|ref|NC_000962.3| 337748 . G <NON_REF> . . END=337748 GT:DP:GQ:MIN_DP:PL 0:2:56:2:0,56 | |
| 758 gi|448814763|ref|NC_000962.3| 337749 . C <NON_REF> . . END=337750 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,103 | |
| 759 gi|448814763|ref|NC_000962.3| 337751 . A <NON_REF> . . END=337751 GT:DP:GQ:MIN_DP:PL 0:3:98:3:0,98 | |
| 760 gi|448814763|ref|NC_000962.3| 337752 . G <NON_REF> . . END=337752 GT:DP:GQ:MIN_DP:PL 0:2:61:2:0,61 | |
| 761 gi|448814763|ref|NC_000962.3| 337753 . T <NON_REF> . . END=337753 GT:DP:GQ:MIN_DP:PL 0:3:82:3:0,82 | |
| 762 gi|448814763|ref|NC_000962.3| 337754 . G <NON_REF> . . END=337754 GT:DP:GQ:MIN_DP:PL 0:3:71:3:0,72 | |
| 763 gi|448814763|ref|NC_000962.3| 337755 . C <NON_REF> . . END=337766 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,127 | |
| 764 gi|448814763|ref|NC_000962.3| 337767 . C <NON_REF> . . END=337775 GT:DP:GQ:MIN_DP:PL 0:5:89:4:0,90 | |
| 765 gi|448814763|ref|NC_000962.3| 337776 . C <NON_REF> . . END=337785 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,126 | |
| 766 gi|448814763|ref|NC_000962.3| 337786 . T <NON_REF> . . END=337795 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 767 gi|448814763|ref|NC_000962.3| 337796 . G <NON_REF> . . END=337796 GT:DP:GQ:MIN_DP:PL 0:2:55:2:0,55 | |
| 768 gi|448814763|ref|NC_000962.3| 337797 . C <NON_REF> . . END=337797 GT:DP:GQ:MIN_DP:PL 0:2:70:2:0,71 | |
| 769 gi|448814763|ref|NC_000962.3| 337798 . T <NON_REF> . . END=337798 GT:DP:GQ:MIN_DP:PL 0:2:65:2:0,66 | |
| 770 gi|448814763|ref|NC_000962.3| 337799 . T <NON_REF> . . END=337799 GT:DP:GQ:MIN_DP:PL 0:2:53:2:0,53 | |
| 771 gi|448814763|ref|NC_000962.3| 337800 . C <NON_REF> . . END=337816 GT:DP:GQ:MIN_DP:PL 0:2:0:0:0,0 | |
| 772 gi|448814763|ref|NC_000962.3| 337817 . G <NON_REF> . . END=337817 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 773 gi|448814763|ref|NC_000962.3| 337818 . G <NON_REF> . . END=337824 GT:DP:GQ:MIN_DP:PL 0:1:0:1:0,0 | |
| 774 gi|448814763|ref|NC_000962.3| 337825 . C <NON_REF> . . END=337828 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 775 gi|448814763|ref|NC_000962.3| 337829 . G <NON_REF> . . END=337829 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 776 gi|448814763|ref|NC_000962.3| 337830 . T <NON_REF> . . END=337830 GT:DP:GQ:MIN_DP:PL 0:1:0:1:0,0 | |
| 777 gi|448814763|ref|NC_000962.3| 337831 . T <NON_REF> . . END=337831 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 778 gi|448814763|ref|NC_000962.3| 337832 . C <NON_REF> . . END=337833 GT:DP:GQ:MIN_DP:PL 0:1:0:1:0,0 | |
| 779 gi|448814763|ref|NC_000962.3| 337834 . C <NON_REF> . . END=337834 GT:DP:GQ:MIN_DP:PL 0:1:42:1:0,43 | |
| 780 gi|448814763|ref|NC_000962.3| 337835 . G <NON_REF> . . END=337835 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 781 gi|448814763|ref|NC_000962.3| 337836 . C <NON_REF> . . END=337836 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 782 gi|448814763|ref|NC_000962.3| 337837 . T <NON_REF> . . END=337837 GT:DP:GQ:MIN_DP:PL 0:1:0:1:0,0 | |
| 783 gi|448814763|ref|NC_000962.3| 337838 . G <NON_REF> . . END=337838 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 784 gi|448814763|ref|NC_000962.3| 337839 . G <NON_REF> . . END=337839 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 785 gi|448814763|ref|NC_000962.3| 337840 . C <NON_REF> . . END=337840 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 786 gi|448814763|ref|NC_000962.3| 337841 . G <NON_REF> . . END=337844 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 787 gi|448814763|ref|NC_000962.3| 337845 . C <NON_REF> . . END=337845 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 788 gi|448814763|ref|NC_000962.3| 337846 . C <NON_REF> . . END=337846 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 789 gi|448814763|ref|NC_000962.3| 337847 . G <NON_REF> . . END=337847 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 790 gi|448814763|ref|NC_000962.3| 337848 . T <NON_REF> . . END=337848 GT:DP:GQ:MIN_DP:PL 0:2:70:2:0,71 | |
| 791 gi|448814763|ref|NC_000962.3| 337849 . T <NON_REF> . . END=337850 GT:DP:GQ:MIN_DP:PL 0:2:67:2:0,64 | |
| 792 gi|448814763|ref|NC_000962.3| 337851 . C <NON_REF> . . END=337904 GT:DP:GQ:MIN_DP:PL 0:6:99:3:0,119 | |
| 793 gi|448814763|ref|NC_000962.3| 337905 . C <NON_REF> . . END=337916 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 794 gi|448814763|ref|NC_000962.3| 337917 . G <NON_REF> . . END=337917 GT:DP:GQ:MIN_DP:PL 0:2:77:2:0,78 | |
| 795 gi|448814763|ref|NC_000962.3| 337918 . C <NON_REF> . . END=337930 GT:DP:GQ:MIN_DP:PL 0:3:89:2:0,82 | |
| 796 gi|448814763|ref|NC_000962.3| 337931 . G <NON_REF> . . END=337931 GT:DP:GQ:MIN_DP:PL 0:2:69:2:0,70 | |
| 797 gi|448814763|ref|NC_000962.3| 337932 . C <NON_REF> . . END=337934 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,73 | |
| 798 gi|448814763|ref|NC_000962.3| 337935 . G <NON_REF> . . END=337935 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 799 gi|448814763|ref|NC_000962.3| 337936 . C <NON_REF> . . END=337937 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,78 | |
| 800 gi|448814763|ref|NC_000962.3| 337938 . C <NON_REF> . . END=337950 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 801 gi|448814763|ref|NC_000962.3| 337951 . C <NON_REF> . . END=337951 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 802 gi|448814763|ref|NC_000962.3| 337952 . C <NON_REF> . . END=337953 GT:DP:GQ:MIN_DP:PL 0:3:78:2:0,76 | |
| 803 gi|448814763|ref|NC_000962.3| 337954 . C <NON_REF> . . END=337957 GT:DP:GQ:MIN_DP:PL 0:3:99:3:0,101 | |
| 804 gi|448814763|ref|NC_000962.3| 337958 . G <NON_REF> . . END=337958 GT:DP:GQ:MIN_DP:PL 0:3:61:3:0,62 | |
| 805 gi|448814763|ref|NC_000962.3| 337959 . A <NON_REF> . . END=337959 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 806 gi|448814763|ref|NC_000962.3| 337960 . T <NON_REF> . . END=337960 GT:DP:GQ:MIN_DP:PL 0:3:82:3:0,82 | |
| 807 gi|448814763|ref|NC_000962.3| 337961 . G <NON_REF> . . END=337961 GT:DP:GQ:MIN_DP:PL 0:3:90:3:0,90 | |
| 808 gi|448814763|ref|NC_000962.3| 337962 . A <NON_REF> . . END=337962 GT:DP:GQ:MIN_DP:PL 0:3:60:3:0,61 | |
| 809 gi|448814763|ref|NC_000962.3| 337963 . G <NON_REF> . . END=337963 GT:DP:GQ:MIN_DP:PL 0:3:90:3:0,90 | |
| 810 gi|448814763|ref|NC_000962.3| 337964 . C <NON_REF> . . END=337964 GT:DP:GQ:MIN_DP:PL 0:3:79:3:0,79 | |
| 811 gi|448814763|ref|NC_000962.3| 337965 . A <NON_REF> . . END=337965 GT:DP:GQ:MIN_DP:PL 0:3:91:3:0,91 | |
| 812 gi|448814763|ref|NC_000962.3| 337966 . G <NON_REF> . . END=337966 GT:DP:GQ:MIN_DP:PL 0:3:77:3:0,78 | |
| 813 gi|448814763|ref|NC_000962.3| 337967 . A <NON_REF> . . END=337979 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,111 | |
| 814 gi|448814763|ref|NC_000962.3| 337980 . C <NON_REF> . . END=337985 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 815 gi|448814763|ref|NC_000962.3| 337986 . C <NON_REF> . . END=337986 GT:DP:GQ:MIN_DP:PL 0:4:44:4:0,45 | |
| 816 gi|448814763|ref|NC_000962.3| 337987 . C <NON_REF> . . END=337996 GT:DP:GQ:MIN_DP:PL 0:4:89:3:0,90 | |
| 817 gi|448814763|ref|NC_000962.3| 337997 . G <NON_REF> . . END=337997 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,77 | |
| 818 gi|448814763|ref|NC_000962.3| 337998 . C <NON_REF> . . END=337998 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 819 gi|448814763|ref|NC_000962.3| 337999 . C <NON_REF> . . END=337999 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 820 gi|448814763|ref|NC_000962.3| 338000 . G <NON_REF> . . END=338000 GT:DP:GQ:MIN_DP:PL 0:2:68:2:0,69 | |
| 821 gi|448814763|ref|NC_000962.3| 338001 . G <NON_REF> . . END=338003 GT:DP:GQ:MIN_DP:PL 0:2:82:2:0,82 | |
| 822 gi|448814763|ref|NC_000962.3| 338004 . T <NON_REF> . . END=338005 GT:DP:GQ:MIN_DP:PL 0:2:79:2:0,73 | |
| 823 gi|448814763|ref|NC_000962.3| 338006 . G <NON_REF> . . END=338006 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 824 gi|448814763|ref|NC_000962.3| 338007 . A <NON_REF> . . END=338008 GT:DP:GQ:MIN_DP:PL 0:2:74:2:0,75 | |
| 825 gi|448814763|ref|NC_000962.3| 338009 . G <NON_REF> . . END=338012 GT:DP:GQ:MIN_DP:PL 0:2:82:2:0,83 | |
| 826 gi|448814763|ref|NC_000962.3| 338013 . A <NON_REF> . . END=338014 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,76 | |
| 827 gi|448814763|ref|NC_000962.3| 338015 . C <NON_REF> . . END=338015 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 828 gi|448814763|ref|NC_000962.3| 338016 . C <NON_REF> . . END=338019 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 829 gi|448814763|ref|NC_000962.3| 338021 . G <NON_REF> . . END=338022 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 830 gi|448814763|ref|NC_000962.3| 338023 . C <NON_REF> . . END=338029 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 831 gi|448814763|ref|NC_000962.3| 338030 . G <NON_REF> . . END=338038 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 832 gi|448814763|ref|NC_000962.3| 338039 . G <NON_REF> . . END=338039 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 833 gi|448814763|ref|NC_000962.3| 338040 . G <NON_REF> . . END=338040 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 834 gi|448814763|ref|NC_000962.3| 338041 . A <NON_REF> . . END=338041 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 835 gi|448814763|ref|NC_000962.3| 338042 . G <NON_REF> . . END=338042 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 836 gi|448814763|ref|NC_000962.3| 338043 . C <NON_REF> . . END=338044 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 837 gi|448814763|ref|NC_000962.3| 338045 . G <NON_REF> . . END=338045 GT:DP:GQ:MIN_DP:PL 0:2:73:2:0,74 | |
| 838 gi|448814763|ref|NC_000962.3| 338046 . A <NON_REF> . . END=338099 GT:DP:GQ:MIN_DP:PL 0:8:99:3:0,102 | |
| 839 gi|448814763|ref|NC_000962.3| 338101 . T <NON_REF> . . END=338166 GT:DP:GQ:MIN_DP:PL 0:7:99:5:0,135 | |
| 840 gi|448814763|ref|NC_000962.3| 338167 . C <NON_REF> . . END=338177 GT:DP:GQ:MIN_DP:PL 0:3:0:3:0,0 | |
| 841 gi|448814763|ref|NC_000962.3| 338178 . C <NON_REF> . . END=338179 GT:DP:GQ:MIN_DP:PL 0:4:44:3:0,45 | |
| 842 gi|448814763|ref|NC_000962.3| 338180 . G <NON_REF> . . END=338181 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 843 gi|448814763|ref|NC_000962.3| 338182 . C <NON_REF> . . END=338183 GT:DP:GQ:MIN_DP:PL 0:1:39:1:0,40 | |
| 844 gi|448814763|ref|NC_000962.3| 338184 . A <NON_REF> . . END=338184 GT:DP:GQ:MIN_DP:PL 0:1:36:1:0,37 | |
| 845 gi|448814763|ref|NC_000962.3| 338185 . C <NON_REF> . . END=338185 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 846 gi|448814763|ref|NC_000962.3| 338186 . G <NON_REF> . . END=338186 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 847 gi|448814763|ref|NC_000962.3| 338187 . T <NON_REF> . . END=338187 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 848 gi|448814763|ref|NC_000962.3| 338188 . T <NON_REF> . . END=338188 GT:DP:GQ:MIN_DP:PL 0:1:33:1:0,34 | |
| 849 gi|448814763|ref|NC_000962.3| 338189 . G <NON_REF> . . END=338189 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 850 gi|448814763|ref|NC_000962.3| 338190 . A <NON_REF> . . END=338190 GT:DP:GQ:MIN_DP:PL 0:1:37:1:0,38 | |
| 851 gi|448814763|ref|NC_000962.3| 338191 . T <NON_REF> . . END=338192 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 852 gi|448814763|ref|NC_000962.3| 338193 . A <NON_REF> . . END=338193 GT:DP:GQ:MIN_DP:PL 0:1:38:1:0,39 | |
| 853 gi|448814763|ref|NC_000962.3| 338194 . T <NON_REF> . . END=338194 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 854 gi|448814763|ref|NC_000962.3| 338195 . G <NON_REF> . . END=338196 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 855 gi|448814763|ref|NC_000962.3| 338197 . T <NON_REF> . . END=338197 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 856 gi|448814763|ref|NC_000962.3| 338198 . C <NON_REF> . . END=338199 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 857 gi|448814763|ref|NC_000962.3| 338200 . T <NON_REF> . . END=338200 GT:DP:GQ:MIN_DP:PL 0:1:35:1:0,36 | |
| 858 gi|448814763|ref|NC_000962.3| 338201 . C <NON_REF> . . END=338201 GT:DP:GQ:MIN_DP:PL 0:1:41:1:0,42 | |
| 859 gi|448814763|ref|NC_000962.3| 338202 . C <NON_REF> . . END=338202 GT:DP:GQ:MIN_DP:PL 0:1:40:1:0,41 | |
| 860 gi|448814763|ref|NC_000962.3| 338203 . C <NON_REF> . . END=338203 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,82 | |
| 861 gi|448814763|ref|NC_000962.3| 338204 . G <NON_REF> . . END=338204 GT:DP:GQ:MIN_DP:PL 0:2:77:2:0,78 | |
| 862 gi|448814763|ref|NC_000962.3| 338205 . C <NON_REF> . . END=338206 GT:DP:GQ:MIN_DP:PL 0:2:80:2:0,81 | |
| 863 gi|448814763|ref|NC_000962.3| 338207 . A <NON_REF> . . END=338207 GT:DP:GQ:MIN_DP:PL 0:2:77:2:0,78 | |
| 864 gi|448814763|ref|NC_000962.3| 338208 . C <NON_REF> . . END=338379 GT:DP:GQ:MIN_DP:PL 0:8:99:3:0,108 | |
| 865 gi|448814763|ref|NC_000962.3| 338380 . C <NON_REF> . . END=338388 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 866 gi|448814763|ref|NC_000962.3| 338389 . C <NON_REF> . . END=338389 GT:DP:GQ:MIN_DP:PL 0:4:44:4:0,45 | |
| 867 gi|448814763|ref|NC_000962.3| 338390 . C <NON_REF> . . END=338396 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 868 gi|448814763|ref|NC_000962.3| 338397 . T <NON_REF> . . END=338400 GT:DP:GQ:MIN_DP:PL 0:3:44:2:0,45 | |
| 869 gi|448814763|ref|NC_000962.3| 338401 . C <NON_REF> . . END=338401 GT:DP:GQ:MIN_DP:PL 0:2:3:2:0,3 | |
| 870 gi|448814763|ref|NC_000962.3| 338402 . G <NON_REF> . . END=338402 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 871 gi|448814763|ref|NC_000962.3| 338403 . A <NON_REF> . . END=338406 GT:DP:GQ:MIN_DP:PL 0:3:89:3:0,90 | |
| 872 gi|448814763|ref|NC_000962.3| 338407 . G <NON_REF> . . END=338407 GT:DP:GQ:MIN_DP:PL 0:2:76:2:0,77 | |
| 873 gi|448814763|ref|NC_000962.3| 338408 . C <NON_REF> . . END=338408 GT:DP:GQ:MIN_DP:PL 0:2:3:2:0,3 | |
| 874 gi|448814763|ref|NC_000962.3| 338409 . C <NON_REF> . . END=338413 GT:DP:GQ:MIN_DP:PL 0:2:81:2:0,81 | |
| 875 gi|448814763|ref|NC_000962.3| 338414 . G <NON_REF> . . END=338414 GT:DP:GQ:MIN_DP:PL 0:2:78:2:0,79 | |
| 876 gi|448814763|ref|NC_000962.3| 338415 . T <NON_REF> . . END=338415 GT:DP:GQ:MIN_DP:PL 0:2:65:2:0,66 | |
| 877 gi|448814763|ref|NC_000962.3| 338416 . T <NON_REF> . . END=338416 GT:DP:GQ:MIN_DP:PL 0:2:73:2:0,74 | |
| 878 gi|448814763|ref|NC_000962.3| 338417 . T <NON_REF> . . END=338417 GT:DP:GQ:MIN_DP:PL 0:2:44:2:0,45 | |
| 879 gi|448814763|ref|NC_000962.3| 338418 . C <NON_REF> . . END=338422 GT:DP:GQ:MIN_DP:PL 0:2:0:2:0,0 | |
| 880 gi|448814763|ref|NC_000962.3| 338423 . G <NON_REF> . . END=338425 GT:DP:GQ:MIN_DP:PL 0:3:44:3:0,45 | |
| 881 gi|448814763|ref|NC_000962.3| 338426 . C <NON_REF> . . END=338426 GT:DP:GQ:MIN_DP:PL 0:4:89:4:0,90 | |
| 882 gi|448814763|ref|NC_000962.3| 338427 . C <NON_REF> . . END=338434 GT:DP:GQ:MIN_DP:PL 0:4:99:4:0,130 | |
| 883 gi|448814763|ref|NC_000962.3| 338435 . G <NON_REF> . . END=338435 GT:DP:GQ:MIN_DP:PL 0:4:41:4:0,41 | |
| 884 gi|448814763|ref|NC_000962.3| 338436 . C <NON_REF> . . END=338452 GT:DP:GQ:MIN_DP:PL 0:7:99:6:0,195 |