BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525075.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 = 987,954 number of mapped reads = 897,742 (90.87%) number of supplementary alignments = 3,090 (0.31%) number of secondary alignments = 0 number of mapped bases = 52,469,468 bp number of sequenced bases = 52,453,082 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 39,537 duplication rate = 3.59% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8476 >>>>>>> ACTG content number of A's = 13,481,802 bp (25.7%) number of C's = 10,212,953 bp (19.47%) number of T's = 16,470,562 bp (31.4%) number of G's = 12,282,188 bp (23.42%) number of N's = 5,577 bp (0.01%) GC percentage = 42.89% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 248,718 number of insertions = 3,901 mapped reads with insertion percentage = 0.43% number of deletions = 9,978 mapped reads with deletion percentage = 1.1% homopolymer indels = 41.38% >>>>>>> Coverage mean coverageData = 0.0169X std coverageData = 0.1843X There is a 1.53% of reference with a coverageData >= 1X There is a 0.12% of reference with a coverageData >= 2X There is a 0.02% 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 4335521 0.017394223463138334 0.3152306980916667 chr2 243199373 4437191 0.01824507582098084 0.22382014170279949 chr3 198022430 3399151 0.017165484738269295 0.1417666297856225 chr4 191154276 3387075 0.017719064783044663 0.161165341102156 chr5 180915260 3132979 0.01731738384036814 0.14264172218843302 chr6 171115067 2944764 0.017209261882239743 0.14852441645351225 chr7 159138663 2815947 0.017694926845024456 0.19714842880074288 chr8 146364022 2669205 0.018236756297937754 0.17959691000356556 chr9 141213431 2097129 0.014850775773587711 0.15127480168872426 chr10 135534747 2545862 0.01878383260640904 0.21011986191383666 chr11 135006516 2323842 0.01721281363930612 0.15484064426030478 chr12 133851895 2332371 0.017425012921931365 0.14643655796061913 chr13 115169878 1664780 0.014454994907609436 0.13106850029507483 chr14 107349540 1531245 0.01426410397287217 0.1302491969830292 chr15 102531392 1522153 0.014845726467850939 0.1314612930543872 chr16 90354753 1837086 0.020331924320572268 0.16437631119619397 chr17 81195210 1394649 0.017176493539458795 0.14694070702385562 chr18 78077248 1400189 0.017933380541281373 0.24004454841986875 chr19 59128983 1109027 0.01875606417921986 0.2388646150492579 chr20 63025520 1123737 0.017829872724572524 0.1477634343329791 chr21 48129895 681448 0.014158518317980956 0.14175740982446125 chr22 51304566 624494 0.012172288914791716 0.12019409084459762 chrMT 16571 9861 0.5950757347172771 0.8542636300604943 chrX 155270560 2962985 0.019082722442683275 0.15869208031407597 chrY 59373566 186777 0.0031457938706258605 0.12102956349608453