BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524430.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 = 1,038,311 number of mapped reads = 911,257 (87.76%) number of supplementary alignments = 4,015 (0.39%) number of secondary alignments = 0 number of mapped bases = 53,087,262 bp number of sequenced bases = 53,071,457 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 37,352 duplication rate = 3.04% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7639 >>>>>>> ACTG content number of A's = 12,755,203 bp (24.03%) number of C's = 11,075,532 bp (20.87%) number of T's = 16,872,111 bp (31.79%) number of G's = 12,362,886 bp (23.29%) number of N's = 5,725 bp (0.01%) GC percentage = 44.16% >>>>>>> Mismatches and indels general error rate = 0.0055 number of mismatches = 280,009 number of insertions = 4,941 mapped reads with insertion percentage = 0.54% number of deletions = 9,753 mapped reads with deletion percentage = 1.06% homopolymer indels = 39.56% >>>>>>> Coverage mean coverageData = 0.0171X std coverageData = 0.2005X There is a 1.55% of reference with a coverageData >= 1X There is a 0.11% 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 4309735 0.017290769357802323 0.35297902328129743 chr2 243199373 4450663 0.018300470700637866 0.2558404100241869 chr3 198022430 3442694 0.017385373970009357 0.14230670201840373 chr4 191154276 3400856 0.017791158383503803 0.19105839493969454 chr5 180915260 3149420 0.017408260640921058 0.1423483435188532 chr6 171115067 2864309 0.016739081193826142 0.14636390403586785 chr7 159138663 2960732 0.018604730894339613 0.2375632686392519 chr8 146364022 2662106 0.01818825394125887 0.16558968432551874 chr9 141213431 2239325 0.01585773381570199 0.15795416790970293 chr10 135534747 2598585 0.019172832484056653 0.24356700054947478 chr11 135006516 2371328 0.01756454481056307 0.16907944076205791 chr12 133851895 2397141 0.01790890595908261 0.1460425737792019 chr13 115169878 1602674 0.013915739322047385 0.12671144682465044 chr14 107349540 1582231 0.014739057102620095 0.13291777547919478 chr15 102531392 1568555 0.015298290303129796 0.13340456568297565 chr16 90354753 1669293 0.018474877575062377 0.15512668980276956 chr17 81195210 1569547 0.01933053686295041 0.1605527706534151 chr18 78077248 1343206 0.017203552051424764 0.255932293134151 chr19 59128983 1184229 0.02002789393485763 0.2525074797188304 chr20 63025520 1177227 0.018678576551212904 0.15251109551840572 chr21 48129895 725049 0.015064420979933574 0.17708534679872234 chr22 51304566 708204 0.013803917569442065 0.12834862361056418 chrMT 16571 17054 1.0291473055337639 1.2700648786754642 chrX 155270560 2866590 0.01846190288745014 0.15667174026884398 chrY 59373566 226509 0.0038149805588567815 0.1552636024637501