BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524324.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 = 1,162,533 number of mapped reads = 1,065,436 (91.65%) number of supplementary alignments = 4,095 (0.35%) number of secondary alignments = 0 number of mapped bases = 61,442,027 bp number of sequenced bases = 61,426,274 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 26,654 duplication rate = 1.81% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.7048 >>>>>>> ACTG content number of A's = 15,704,879 bp (25.57%) number of C's = 12,615,733 bp (20.54%) number of T's = 18,628,509 bp (30.33%) number of G's = 14,468,893 bp (23.55%) number of N's = 8,260 bp (0.01%) GC percentage = 44.09% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 307,432 number of insertions = 4,591 mapped reads with insertion percentage = 0.43% number of deletions = 9,799 mapped reads with deletion percentage = 0.91% homopolymer indels = 41.33% >>>>>>> Coverage mean coverageData = 0.0198X std coverageData = 0.1971X There is a 1.84% of reference with a coverageData >= 1X There is a 0.11% 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 5246343 0.0210484651109455 0.32096443728855795 chr2 243199373 3955829 0.016265786178651046 0.2668451449040753 chr3 198022430 4273072 0.021578727217921728 0.15662540692228086 chr4 191154276 3166825 0.01656685409433373 0.1472055920076255 chr5 180915260 3605912 0.01993149721035141 0.14978418802599483 chr6 171115067 3845280 0.02247189606044452 0.16777843634695064 chr7 159138663 2789297 0.01752746282655397 0.22165010057992562 chr8 146364022 6335405 0.043285261729142696 0.25554908469467497 chr9 141213431 2563840 0.01815578009714954 0.1620969036144371 chr10 135534747 3145222 0.023206019634212326 0.19984017595978085 chr11 135006516 2956177 0.02189655053390164 0.17750342071460604 chr12 133851895 2447330 0.018283865163059514 0.14544270427540393 chr13 115169878 1546717 0.013429874432965883 0.12284454829941574 chr14 107349540 1277298 0.011898495326575224 0.11827355405026475 chr15 102531392 1911671 0.018644738579185582 0.14793757892310097 chr16 90354753 1977783 0.021889086454588615 0.1629792170290965 chr17 81195210 1912155 0.023550096120202164 0.17154341351011387 chr18 78077248 1421804 0.01821022175371755 0.2412254440592701 chr19 59128983 1142638 0.019324499459089293 0.23808414316327156 chr20 63025520 1436788 0.022796924166591563 0.16203881386909835 chr21 48129895 897309 0.01864348550937001 0.15123140253922263 chr22 51304566 462747 0.009019606558995159 0.10034700821767016 chrMT 16571 34472 2.0802606963973207 1.9161207182959148 chrX 155270560 2921323 0.018814403709241468 0.154384896627634 chrY 59373566 168790 0.0028428476066268277 0.08444293230280026