BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524761.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 = 1,301,730 number of mapped reads = 1,191,773 (91.55%) number of supplementary alignments = 3,793 (0.29%) number of secondary alignments = 0 number of mapped bases = 68,521,098 bp number of sequenced bases = 68,499,278 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 34,595 duplication rate = 2.16% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.4223 >>>>>>> ACTG content number of A's = 15,837,881 bp (23.12%) number of C's = 12,837,461 bp (18.74%) number of T's = 21,965,806 bp (32.07%) number of G's = 17,850,102 bp (26.06%) number of N's = 8,028 bp (0.01%) GC percentage = 44.8% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 340,858 number of insertions = 4,544 mapped reads with insertion percentage = 0.38% number of deletions = 13,370 mapped reads with deletion percentage = 1.11% homopolymer indels = 42.65% >>>>>>> Coverage mean coverageData = 0.0221X std coverageData = 0.2005X There is a 2.01% of reference with a coverageData >= 1X There is a 0.14% 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 5517848 0.022137750260610184 0.24137858744922303 chr2 243199373 5724850 0.023539739964707887 0.3051689778705038 chr3 198022430 4460120 0.022523307081930063 0.1636395100730555 chr4 191154276 4358022 0.022798454165890592 0.18053918100360353 chr5 180915260 4025781 0.022252301989340202 0.16091538854381784 chr6 171115067 3937283 0.023009563500331624 0.17226125408615292 chr7 159138663 3826496 0.02404504303269156 0.2449388024545915 chr8 146364022 3486685 0.0238220086627573 0.18809469446133456 chr9 141213431 2859323 0.020248236869196953 0.1806169269044141 chr10 135534747 3424561 0.025267033552657903 0.23661591457376194 chr11 135006516 3050606 0.022595990848323203 0.1895788990800949 chr12 133851895 3079903 0.023009782566021944 0.1646168212806113 chr13 115169878 2058113 0.017870236868706244 0.14479880081892402 chr14 107349540 2027791 0.01888961051905765 0.15015865002669265 chr15 102531392 1999888 0.01950512873169614 0.1509952722644525 chr16 90354753 2120862 0.023472611341209686 0.18273375287081783 chr17 81195210 1979399 0.024378273053299572 0.17427274209375676 chr18 78077248 1771799 0.022692897680000195 0.25629982600305123 chr19 59128983 1561166 0.026402720303848284 0.22159998839894884 chr20 63025520 1479455 0.0234739039043232 0.17161874618151546 chr21 48129895 890413 0.018500206576390826 0.16230433182531476 chr22 51304566 877862 0.017110796727137306 0.1434274310714872 chrMT 16571 23244 1.4026914489167823 1.3465137214196388 chrX 155270560 3755063 0.024183998563539668 0.1781362916574552 chrY 59373566 224565 0.003782238715457987 0.1058755198038223