BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714157.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 41,904 number of mapped reads = 8,460 (20.19%) number of supplementary alignments = 475 (1.13%) number of secondary alignments = 0 number of mapped bases = 996,390 bp number of sequenced bases = 981,243 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 6,555 duplication rate = 37.52% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 32.0882 >>>>>>> ACTG content number of A's = 246,902 bp (25.16%) number of C's = 164,314 bp (16.75%) number of T's = 226,991 bp (23.13%) number of G's = 343,023 bp (34.96%) number of N's = 13 bp (0%) GC percentage = 51.7% >>>>>>> Mismatches and indels general error rate = 0.0389 number of mismatches = 33,536 number of insertions = 1,078 mapped reads with insertion percentage = 11.74% number of deletions = 2,527 mapped reads with deletion percentage = 28.52% homopolymer indels = 29.76% >>>>>>> Coverage mean coverageData = 0.0003X std coverageData = 0.2328X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 60396 2.4231032908840776E-4 0.10413633433881979 chr2 243199373 244851 0.001006791246949473 0.7774473139477648 chr3 198022430 47848 2.4162919321816221E-4 0.07933714405232475 chr4 191154276 41849 2.1892787791992683E-4 0.0713800362085408 chr5 180915260 68478 3.7850870070330164E-4 0.10465787241923441 chr6 171115067 26738 1.5625742647197748E-4 0.06585523014934554 chr7 159138663 37047 2.3279697907226983E-4 0.07719445809239649 chr8 146364022 29519 2.016820773072224E-4 0.06259792416082957 chr9 141213431 19782 1.400858251223993E-4 0.06786951783862634 chr10 135534747 34978 2.5807404207571955E-4 0.07996508464582865 chr11 135006516 19084 1.4135614017326393E-4 0.04550562920569019 chr12 133851895 20175 1.507262934155695E-4 0.041749096870994186 chr13 115169878 7913 6.870720137430379E-5 0.03707699810297753 chr14 107349540 28050 2.612959496612654E-4 0.07225423362602708 chr15 102531392 18287 1.7835513244568064E-4 0.0630041581141827 chr16 90354753 26512 2.9342119943596105E-4 0.0837443227358729 chr17 81195210 34726 4.2768532774285577E-4 0.1103423866098872 chr18 78077248 6030 7.723120569003661E-5 0.03548623074138991 chr19 59128983 23002 3.890139629156145E-4 0.1223648247367873 chr20 63025520 9291 1.474164751040531E-4 0.048395348144630826 chr21 48129895 7748 1.6098102852707242E-4 0.05399134040988501 chr22 51304566 5788 1.1281646939572591E-4 0.04759213702010171 chrMT 16571 13098 0.7904169935429365 6.299640968234067 chrX 155270560 158973 0.0010238450869243982 0.17415344981804765 chrY 59373566 6227 1.0487832245076874E-4 0.04703799497550044