BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524793.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 = 992,017 number of mapped reads = 901,380 (90.86%) number of supplementary alignments = 3,435 (0.35%) number of secondary alignments = 0 number of mapped bases = 51,362,094 bp number of sequenced bases = 51,346,399 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 28,977 duplication rate = 2.49% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.5079 >>>>>>> ACTG content number of A's = 12,784,531 bp (24.9%) number of C's = 9,863,231 bp (19.21%) number of T's = 16,298,700 bp (31.74%) number of G's = 12,393,819 bp (24.14%) number of N's = 6,118 bp (0.01%) GC percentage = 43.35% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 256,554 number of insertions = 3,822 mapped reads with insertion percentage = 0.42% number of deletions = 9,794 mapped reads with deletion percentage = 1.08% homopolymer indels = 40.47% >>>>>>> Coverage mean coverageData = 0.0166X std coverageData = 0.1722X There is a 1.52% 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 4108964 0.016485270863176707 0.22378168703497286 chr2 243199373 4349831 0.017885864368573024 0.25657897664533674 chr3 198022430 3388302 0.017110698015371288 0.14150665493534526 chr4 191154276 3303066 0.017279582069092716 0.1566078402155741 chr5 180915260 3072838 0.016984957487831596 0.13886544948733812 chr6 171115067 2916159 0.017042093669051364 0.14915442249455022 chr7 159138663 2827967 0.017770458458608515 0.19979803026594184 chr8 146364022 2568797 0.017550740714135336 0.16485031992680688 chr9 141213431 2163893 0.015323563663005964 0.15053604421081748 chr10 135534747 2522113 0.018608608167468673 0.2038386942963501 chr11 135006516 2313656 0.01713736542908788 0.15563037589084888 chr12 133851895 2329433 0.017403063288719222 0.14252555713027393 chr13 115169878 1574079 0.013667453915337134 0.12470564207347898 chr14 107349540 1547276 0.014413438567133124 0.13125696376824184 chr15 102531392 1461364 0.01425284463123255 0.12738869519057763 chr16 90354753 1540132 0.017045389964156065 0.15185376120974192 chr17 81195210 1445421 0.01780180136242027 0.1470556622625339 chr18 78077248 1362537 0.017451140183629425 0.2190410541204544 chr19 59128983 1118500 0.018916273259765012 0.1963038274218243 chr20 63025520 1093076 0.017343387250117095 0.1463874240491247 chr21 48129895 673256 0.013988312253745827 0.13517504964763163 chr22 51304566 639534 0.01246544021052629 0.12010206615599428 chrMT 16571 10733 0.6476977852875505 0.893440078495883 chrX 155270560 2845852 0.01832834247522518 0.1506739043109735 chrY 59373566 185315 0.003121170118028619 0.0947007922908476