BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524318.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 = 1,139,733 number of mapped reads = 1,051,538 (92.26%) number of supplementary alignments = 4,300 (0.38%) number of secondary alignments = 0 number of mapped bases = 61,898,675 bp number of sequenced bases = 61,881,044 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,306 duplication rate = 1.61% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.3341 >>>>>>> ACTG content number of A's = 15,821,723 bp (25.57%) number of C's = 12,354,704 bp (19.97%) number of T's = 19,139,616 bp (30.93%) number of G's = 14,556,735 bp (23.52%) number of N's = 8,266 bp (0.01%) GC percentage = 43.49% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 312,434 number of insertions = 4,968 mapped reads with insertion percentage = 0.47% number of deletions = 11,322 mapped reads with deletion percentage = 1.07% homopolymer indels = 42.04% >>>>>>> Coverage mean coverageData = 0.02X std coverageData = 0.2011X There is a 1.86% of reference with a coverageData >= 1X There is a 0.1% 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 5197200 0.020851302111700658 0.33956096881891434 chr2 243199373 3984758 0.016384737965586777 0.24751771368737946 chr3 198022430 4300092 0.021715176407036314 0.15507657543096887 chr4 191154276 3192616 0.016701776527353225 0.14737727700017778 chr5 180915260 3616804 0.019991702192507142 0.14873154233738595 chr6 171115067 4017719 0.023479633152351218 0.16885747125473766 chr7 159138663 2786762 0.017511533322358 0.23451227480101908 chr8 146364022 6500335 0.0444121096918203 0.2652242901658626 chr9 141213431 2605748 0.01845255073506429 0.1667367909562586 chr10 135534747 3113403 0.022971253268359294 0.20379451438079696 chr11 135006516 2952237 0.02186736675732007 0.18122319757302 chr12 133851895 2454340 0.018336236479879496 0.1439407832112787 chr13 115169878 1578426 0.013705198159539597 0.12391126105797193 chr14 107349540 1326269 0.012354677998620209 0.12128673660547608 chr15 102531392 1908020 0.018609129972603902 0.14507170285145815 chr16 90354753 1924354 0.021297761723724707 0.16171488003798762 chr17 81195210 1880138 0.023155774829574306 0.17077954390027167 chr18 78077248 1492265 0.01911267415572844 0.28089573755892694 chr19 59128983 1057346 0.017882025807885112 0.25251739311884996 chr20 63025520 1407773 0.022336555097046403 0.16025938509634907 chr21 48129895 907752 0.018860460842476386 0.1508836637070174 chr22 51304566 447088 0.008714390060331083 0.09817842411960066 chrMT 16571 10675 0.6441976947679682 0.8848420670248717 chrX 155270560 3060820 0.019712816132047183 0.15938332976035374 chrY 59373566 175735 0.002959818852719744 0.08571334419440067