BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524486.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 = 867,401 number of mapped reads = 794,684 (91.62%) number of supplementary alignments = 1,837 (0.21%) number of secondary alignments = 0 number of mapped bases = 46,348,667 bp number of sequenced bases = 46,334,008 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,360 duplication rate = 2.39% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3396 >>>>>>> ACTG content number of A's = 11,894,019 bp (25.67%) number of C's = 8,201,712 bp (17.7%) number of T's = 14,494,895 bp (31.28%) number of G's = 11,742,475 bp (25.34%) number of N's = 907 bp (0%) GC percentage = 43.04% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 216,902 number of insertions = 2,898 mapped reads with insertion percentage = 0.36% number of deletions = 8,717 mapped reads with deletion percentage = 1.09% homopolymer indels = 43.04% >>>>>>> Coverage mean coverageData = 0.015X std coverageData = 0.1657X There is a 1.38% of reference with a coverageData >= 1X There is a 0.09% 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 4402256 0.017661966025753654 0.27213463904241564 chr2 243199373 3782767 0.015554180725622183 0.18392929344203943 chr3 198022430 2624133 0.013251695780119454 0.12313083831484113 chr4 191154276 2574460 0.013467969714682186 0.132389584464382 chr5 180915260 2631537 0.014545688406826488 0.12846090822568668 chr6 171115067 1700360 0.009936939100751425 0.12529290109410485 chr7 159138663 2391969 0.01503072198111907 0.20097543654259478 chr8 146364022 4214991 0.02879799927881184 0.19651909923342048 chr9 141213431 2005437 0.014201460766150495 0.14874795094624757 chr10 135534747 2505834 0.018488498746376824 0.17014036334966842 chr11 135006516 1652100 0.012237187129545659 0.16663438417708912 chr12 133851895 2206642 0.016485698614875793 0.13652560256996785 chr13 115169878 1068730 0.009279596527835169 0.10373644424916174 chr14 107349540 1112727 0.0103654566195626 0.109154947787414 chr15 102531392 992188 0.009676919240499534 0.1099328154928463 chr16 90354753 1475266 0.016327486391335716 0.141354086591108 chr17 81195210 1611328 0.01984511155276278 0.1545119446012221 chr18 78077248 1135600 0.014544570013533265 0.22597092893346118 chr19 59128983 935029 0.015813378694505872 0.21146410414485672 chr20 63025520 1355528 0.021507605173269495 0.15662487346869464 chr21 48129895 653637 0.013580686182672951 0.12845467452550097 chr22 51304566 364406 0.007102798608607273 0.08976933284592926 chrMT 16571 2959 0.1785649628869712 0.4297647513761487 chrX 155270560 2807152 0.018079100120460698 0.15248400705640897 chrY 59373566 141631 0.002385421822229778 0.07223481453432198