BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524672.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 = 975,706 number of mapped reads = 898,456 (92.08%) number of supplementary alignments = 3,624 (0.37%) number of secondary alignments = 0 number of mapped bases = 52,866,399 bp number of sequenced bases = 52,850,629 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,858 duplication rate = 1.96% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5357 >>>>>>> ACTG content number of A's = 13,708,115 bp (25.94%) number of C's = 10,312,037 bp (19.51%) number of T's = 16,491,207 bp (31.2%) number of G's = 12,331,916 bp (23.33%) number of N's = 7,354 bp (0.01%) GC percentage = 42.85% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 265,338 number of insertions = 4,298 mapped reads with insertion percentage = 0.48% number of deletions = 9,949 mapped reads with deletion percentage = 1.1% homopolymer indels = 42.05% >>>>>>> Coverage mean coverageData = 0.0171X std coverageData = 0.1801X There is a 1.59% of reference with a coverageData >= 1X There is a 0.08% of reference with a coverageData >= 2X There is a 0.01% 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 4245442 0.01703282416295364 0.2699406698061326 chr2 243199373 4456045 0.018322600691902276 0.2481992617782314 chr3 198022430 3505396 0.017702014867709684 0.140049349617331 chr4 191154276 3392168 0.017745708183896446 0.15093284769415172 chr5 180915260 3178475 0.017568860692016804 0.13937925775437215 chr6 171115067 3041356 0.01777374753328998 0.1514037046095832 chr7 159138663 2877623 0.018082488226007026 0.20559397372684188 chr8 146364022 2703696 0.01847240847207656 0.1967071671815774 chr9 141213431 2213894 0.015677644713554196 0.15997091690260745 chr10 135534747 2571761 0.018974920136162574 0.18920021974496726 chr11 135006516 2390771 0.017708560081648207 0.16028396658436012 chr12 133851895 2421534 0.018091144693917108 0.1422511517608347 chr13 115169878 1654814 0.01436846186465527 0.12636957554548264 chr14 107349540 1566412 0.01459169736544749 0.1299986000027454 chr15 102531392 1509989 0.014727089631241913 0.12906501775536344 chr16 90354753 1579896 0.017485477493364404 0.1458087052527146 chr17 81195210 1462351 0.01801031119939218 0.1455378104692158 chr18 78077248 1402464 0.017962518351056635 0.2612743138887451 chr19 59128983 1107237 0.01872579137713226 0.2252065477354138 chr20 63025520 1111006 0.017627875184528425 0.14280558703167792 chr21 48129895 709509 0.014741544730151603 0.14074246450204064 chr22 51304566 623791 0.01215858643068923 0.11565031440036545 chrMT 16571 12300 0.7422605757045441 0.9607958137961231 chrX 155270560 2958059 0.01905099717551093 0.1526871083449453 chrY 59373566 170410 0.0028701324761258233 0.10004955543308096