BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524285.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 2,442,201 number of mapped reads = 2,245,951 (91.96%) number of supplementary alignments = 7,896 (0.32%) number of secondary alignments = 0 number of mapped bases = 131,480,217 bp number of sequenced bases = 131,440,992 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 120,402 duplication rate = 4% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3185 >>>>>>> ACTG content number of A's = 35,210,519 bp (26.79%) number of C's = 23,144,081 bp (17.61%) number of T's = 41,345,053 bp (31.46%) number of G's = 31,723,479 bp (24.14%) number of N's = 17,860 bp (0.01%) GC percentage = 41.74% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 650,468 number of insertions = 9,353 mapped reads with insertion percentage = 0.41% number of deletions = 24,594 mapped reads with deletion percentage = 1.09% homopolymer indels = 42.81% >>>>>>> Coverage mean coverageData = 0.0425X std coverageData = 0.4091X There is a 3.68% of reference with a coverageData >= 1X There is a 0.4% of reference with a coverageData >= 2X There is a 0.06% of reference with a coverageData >= 3X There is a 0.02% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 10588267 0.042480403689746475 0.8436662201300172 chr2 243199373 11140307 0.04580730148510703 0.42660778667955024 chr3 198022430 8726640 0.04406894713896804 0.23533925183689705 chr4 191154276 8463261 0.04427450526924127 0.2779735464035576 chr5 180915260 7980225 0.04411029229927868 0.2396988281002463 chr6 171115067 7573211 0.044258002131396176 0.26373388489671196 chr7 159138663 7265926 0.0456578298637585 0.5651186515919019 chr8 146364022 6770663 0.04625906631617434 0.3986048151043683 chr9 141213431 5488210 0.038864645955666924 0.3664981252034572 chr10 135534747 6320330 0.04663254360890938 0.36662059595459817 chr11 135006516 6095879 0.045152479899562774 0.37063619409878756 chr12 133851895 5795806 0.04330014154823882 0.24291170455629904 chr13 115169878 4135587 0.03590858192972993 0.21353749350185838 chr14 107349540 4022500 0.03747105017869662 0.23178302712598028 chr15 102531392 3784808 0.03691365079682133 0.21831193283178496 chr16 90354753 3775489 0.041785173160730125 0.25401273803265506 chr17 81195210 3470688 0.04274498458714498 0.2582784573752347 chr18 78077248 3525495 0.04515393524116014 0.7409113874878321 chr19 59128983 2583077 0.043685463015658496 0.5292739592789348 chr20 63025520 2798658 0.04440515524504994 0.24491994837563974 chr21 48129895 1744315 0.03624182018265363 0.2523794400012392 chr22 51304566 1542256 0.03006079419909721 0.19407306820175071 chrMT 16571 23950 1.4452959990344578 1.4503740343392235 chrX 155270560 7461154 0.048052599282182015 0.29191200141951934 chrY 59373566 403515 0.006796206244374811 0.18539935471151922