BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524621.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 = 1,022,527 number of mapped reads = 951,405 (93.04%) number of supplementary alignments = 2,183 (0.21%) number of secondary alignments = 0 number of mapped bases = 55,488,355 bp number of sequenced bases = 55,470,231 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 30,166 duplication rate = 2.47% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3724 >>>>>>> ACTG content number of A's = 13,804,529 bp (24.89%) number of C's = 10,204,501 bp (18.4%) number of T's = 17,907,308 bp (32.28%) number of G's = 13,553,525 bp (24.43%) number of N's = 368 bp (0%) GC percentage = 42.83% >>>>>>> Mismatches and indels general error rate = 0.0047 number of mismatches = 257,349 number of insertions = 3,071 mapped reads with insertion percentage = 0.32% number of deletions = 10,553 mapped reads with deletion percentage = 1.1% homopolymer indels = 44.14% >>>>>>> Coverage mean coverageData = 0.0179X std coverageData = 0.1811X There is a 1.64% 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 5703590 0.02288295201479157 0.2924652349702842 chr2 243199373 3945339 0.016222652843763705 0.190306985745222 chr3 198022430 4519368 0.02282250551111811 0.16200731822241823 chr4 191154276 2486570 0.01300818402827672 0.134017324314328 chr5 180915260 3438182 0.01900437807181108 0.1479330015785582 chr6 171115067 3631950 0.021225191116571868 0.16459191471845638 chr7 159138663 3388786 0.021294548641520257 0.23251474138326128 chr8 146364022 4982585 0.034042416516813126 0.24548547515955568 chr9 141213431 2049672 0.014514710006585704 0.16519396897297492 chr10 135534747 2362738 0.017432710447306918 0.17556110707691197 chr11 135006516 2856848 0.021160815675000458 0.18280691148094416 chr12 133851895 1820781 0.013602952726220275 0.12737967134822 chr13 115169878 1378460 0.011968928194922634 0.11741450694870358 chr14 107349540 987521 0.009199117201620054 0.10666078232222058 chr15 102531392 1389410 0.013551069315434632 0.13037621399220398 chr16 90354753 1627163 0.01800860437303171 0.15013389848436054 chr17 81195210 1232045 0.015173863088721613 0.13536714967408314 chr18 78077248 1483899 0.01900552386272631 0.2420406604277434 chr19 59128983 1083347 0.018321759398432405 0.21158794762631644 chr20 63025520 1064374 0.01688798442281793 0.13991881131743666 chr21 48129895 496074 0.010306982801437652 0.11626094120952213 chr22 51304566 905671 0.01765283425260824 0.1419230100028866 chrMT 16571 20209 1.2195401605213927 1.2603024709519632 chrX 155270560 2503265 0.01612195512143448 0.1485744691281013 chrY 59373566 130508 0.0021980825608487117 0.07142279676995296