BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525037.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 = 849,151 number of mapped reads = 776,697 (91.47%) number of supplementary alignments = 3,465 (0.41%) number of secondary alignments = 0 number of mapped bases = 44,080,795 bp number of sequenced bases = 44,065,189 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 40,422 duplication rate = 4.15% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7369 >>>>>>> ACTG content number of A's = 10,578,095 bp (24.01%) number of C's = 8,147,453 bp (18.49%) number of T's = 14,283,185 bp (32.41%) number of G's = 11,056,067 bp (25.09%) number of N's = 389 bp (0%) GC percentage = 43.58% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 226,121 number of insertions = 3,264 mapped reads with insertion percentage = 0.42% number of deletions = 9,337 mapped reads with deletion percentage = 1.19% homopolymer indels = 42.7% >>>>>>> Coverage mean coverageData = 0.0142X std coverageData = 0.1652X There is a 1.25% of reference with a coverageData >= 1X There is a 0.13% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 3546768 0.014229725830853596 0.2372255439286674 chr2 243199373 3726887 0.015324410396403448 0.2045063472645043 chr3 198022430 2819631 0.01423894757780722 0.13383164715078943 chr4 191154276 2827863 0.01479361623069316 0.16241772475958607 chr5 180915260 2602900 0.014387398829706239 0.1338723859664524 chr6 171115067 2592226 0.015149022499579187 0.15286726856613406 chr7 159138663 2360404 0.014832372947609846 0.17183326100732785 chr8 146364022 2237047 0.01528413177932484 0.17592684826362995 chr9 141213431 1801570 0.012757780809107316 0.14146447662892686 chr10 135534747 2200047 0.016232346676384027 0.1974020978904723 chr11 135006516 2006680 0.014863578880888979 0.1586766386726066 chr12 133851895 1969279 0.014712372955197983 0.13665282829113243 chr13 115169878 1377700 0.011962329247235982 0.12208258155580834 chr14 107349540 1323937 0.012332954570648369 0.12655371719332253 chr15 102531392 1322355 0.012897074488172363 0.12845607043136062 chr16 90354753 1315224 0.014556223732911981 0.1381266924657604 chr17 81195210 1215924 0.014975316893693606 0.1474442291415709 chr18 78077248 1142721 0.014635774560086953 0.2056888537104897 chr19 59128983 938016 0.015863895375978307 0.17474222343303902 chr20 63025520 993840 0.015768850459306007 0.14565197940815278 chr21 48129895 610162 0.012677401436259107 0.14978506955396093 chr22 51304566 562316 0.010960350000816691 0.11609746777754561 chrMT 16571 8204 0.49508176935610404 0.8312546231451323 chrX 155270560 2400268 0.015458616237360128 0.14705709656561886 chrY 59373566 178826 0.003011879057424309 0.13045265596860475