BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524747.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 = 1,271,289 number of mapped reads = 1,169,137 (91.96%) number of supplementary alignments = 4,822 (0.38%) number of secondary alignments = 0 number of mapped bases = 67,457,689 bp number of sequenced bases = 67,435,560 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 43,564 duplication rate = 2.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7338 >>>>>>> ACTG content number of A's = 15,758,261 bp (23.37%) number of C's = 12,574,558 bp (18.65%) number of T's = 21,748,867 bp (32.25%) number of G's = 17,346,106 bp (25.72%) number of N's = 7,768 bp (0.01%) GC percentage = 44.37% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 342,329 number of insertions = 4,823 mapped reads with insertion percentage = 0.41% number of deletions = 13,708 mapped reads with deletion percentage = 1.16% homopolymer indels = 42.62% >>>>>>> Coverage mean coverageData = 0.0218X std coverageData = 0.2051X There is a 1.96% of reference with a coverageData >= 1X There is a 0.16% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 5384013 0.021600800745848494 0.2720539069871699 chr2 243199373 5645474 0.02321335754430584 0.3086873316145713 chr3 198022430 4393843 0.0221886126738269 0.16457657727232972 chr4 191154276 4292046 0.022453308865557367 0.18235049475435838 chr5 180915260 4039024 0.022325502005745672 0.1626059464107406 chr6 171115067 3834204 0.022407167686758992 0.17646091135695466 chr7 159138663 3714063 0.023338533389588675 0.234942305308145 chr8 146364022 3352622 0.022906052691008996 0.19859861488052796 chr9 141213431 2890767 0.020470906906864973 0.1788362311237424 chr10 135534747 3301165 0.024356595434527208 0.23460764453678914 chr11 135006516 3040881 0.022523957288106005 0.18777293999243014 chr12 133851895 3032649 0.022656750582425448 0.16551761399480308 chr13 115169878 2098014 0.018216690305081332 0.14723790073093923 chr14 107349540 2030892 0.018918497461656567 0.1543153478734931 chr15 102531392 1937743 0.018899021677185462 0.15076878107946237 chr16 90354753 2065256 0.022857192692453048 0.17733381202690737 chr17 81195210 1942313 0.023921521971554727 0.1746171318384492 chr18 78077248 1766126 0.022620238869074893 0.27825321452553975 chr19 59128983 1508623 0.025514103633407663 0.23083508679386436 chr20 63025520 1487248 0.0235975522296365 0.1738269511165934 chr21 48129895 901205 0.01872443311999746 0.1623794481466065 chr22 51304566 846040 0.016490540042771243 0.14089476881842924 chrMT 16571 13592 0.8202281093476556 1.0854911157577072 chrX 155270560 3712442 0.023909503514381605 0.17767363324110858 chrY 59373566 227444 0.0038307283076108316 0.1126422090712419