BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524528.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 = 2,067,627 number of mapped reads = 1,899,060 (91.85%) number of supplementary alignments = 7,855 (0.38%) number of secondary alignments = 0 number of mapped bases = 110,325,058 bp number of sequenced bases = 110,291,794 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 142,491 duplication rate = 5.82% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2802 >>>>>>> ACTG content number of A's = 27,973,041 bp (25.36%) number of C's = 19,733,614 bp (17.89%) number of T's = 34,626,727 bp (31.4%) number of G's = 27,956,944 bp (25.35%) number of N's = 1,468 bp (0%) GC percentage = 43.24% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 562,687 number of insertions = 7,166 mapped reads with insertion percentage = 0.38% number of deletions = 19,820 mapped reads with deletion percentage = 1.04% homopolymer indels = 42.34% >>>>>>> Coverage mean coverageData = 0.0356X std coverageData = 0.3372X There is a 2.93% of reference with a coverageData >= 1X There is a 0.45% of reference with a coverageData >= 2X There is a 0.09% of reference with a coverageData >= 3X There is a 0.02% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 8949504 0.035905643741605764 0.6361494958629164 chr2 243199373 9320969 0.03832645160643568 0.4177329926937197 chr3 198022430 7026659 0.035484157022010084 0.22297339636284422 chr4 191154276 7172846 0.03752385847753675 0.27222794541728024 chr5 180915260 6553859 0.03622612597743275 0.225126962433081 chr6 171115067 6250591 0.036528583423924905 0.2622285671616149 chr7 159138663 6012986 0.03778457030269256 0.3894383219481046 chr8 146364022 5618624 0.038388013141644875 0.3545492372139313 chr9 141213431 4631705 0.03279932345812064 0.2763986074150493 chr10 135534747 5412583 0.03993502123850204 0.3409620949534534 chr11 135006516 5055623 0.03744725180523879 0.30069540043960225 chr12 133851895 4948629 0.0369709296980816 0.2301532184202845 chr13 115169878 3395240 0.02948027782055999 0.2048772422560822 chr14 107349540 3301227 0.030752129911315877 0.212968707994253 chr15 102531392 3162568 0.03084487529438789 0.20858868749916717 chr16 90354753 3220320 0.035640847803546094 0.23908056811231512 chr17 81195210 2995293 0.03689002097537527 0.24195467609696567 chr18 78077248 2952997 0.03782147905622903 0.4986367448577884 chr19 59128983 2316667 0.03917988915858742 0.4098325240781304 chr20 63025520 2412137 0.03827238553525619 0.23628558249586076 chr21 48129895 1532784 0.03184681786652557 0.2434591626316754 chr22 51304566 1348963 0.026293234797074398 0.19295068153871262 chrMT 16571 18997 1.1464003379397742 1.2896498423832305 chrX 155270560 6295276 0.04054391250987953 0.2600024095400812 chrY 59373566 418011 0.0070403552988547126 0.22850219948195502