BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525044.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 = 1,083,936 number of mapped reads = 989,433 (91.28%) number of supplementary alignments = 4,312 (0.4%) number of secondary alignments = 0 number of mapped bases = 57,248,269 bp number of sequenced bases = 57,234,178 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 22,138 duplication rate = 1.67% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6738 >>>>>>> ACTG content number of A's = 15,009,668 bp (26.23%) number of C's = 11,276,167 bp (19.7%) number of T's = 17,730,751 bp (30.98%) number of G's = 13,215,947 bp (23.09%) number of N's = 1,645 bp (0%) GC percentage = 42.79% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 272,109 number of insertions = 3,905 mapped reads with insertion percentage = 0.39% number of deletions = 8,662 mapped reads with deletion percentage = 0.87% homopolymer indels = 41.71% >>>>>>> Coverage mean coverageData = 0.0185X std coverageData = 0.18X There is a 1.72% 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 4532683 0.018185242555524065 0.2782996144441936 chr2 243199373 4839567 0.019899586665463976 0.19181395404305301 chr3 198022430 3896853 0.01967884648218891 0.14804300417497615 chr4 191154276 3789052 0.01982195784100587 0.15648476389699448 chr5 180915260 3561421 0.019685575445653396 0.1484715666853185 chr6 171115067 3305570 0.019317819628355697 0.1533825190864962 chr7 159138663 3130296 0.01967024191977785 0.19566724748617453 chr8 146364022 2898224 0.019801478262192057 0.21689887200504637 chr9 141213431 2396672 0.016971983351923514 0.17540212064850516 chr10 135534747 2704754 0.019956166664774164 0.1844742640700363 chr11 135006516 2647682 0.019611512676914054 0.17526653405674988 chr12 133851895 2632705 0.019668791390663538 0.1511544220338682 chr13 115169878 1847809 0.016044203849899016 0.13311568684194697 chr14 107349540 1738457 0.01619435910018804 0.14067991067118477 chr15 102531392 1560466 0.015219397391971427 0.13012399157233856 chr16 90354753 1593275 0.017633549393909584 0.1467225874816084 chr17 81195210 1484892 0.01828792609810357 0.14942659232820146 chr18 78077248 1555516 0.019922782114451573 0.26598496669466154 chr19 59128983 1074501 0.018172154254707883 0.22704379589153217 chr20 63025520 1186747 0.018829626475116747 0.14721350223281918 chr21 48129895 736948 0.015311647781487992 0.14042751229807068 chr22 51304566 633668 0.012351103408612793 0.11709985098394053 chrMT 16571 4846 0.2924385975499366 0.5903311706925564 chrX 155270560 3326190 0.021421897364188033 0.1649790032107294 chrY 59373566 169475 0.0028543847273717737 0.07862004558633771