BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524718.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 = 747,453 number of mapped reads = 689,249 (92.21%) number of supplementary alignments = 2,418 (0.32%) number of secondary alignments = 0 number of mapped bases = 40,684,738 bp number of sequenced bases = 40,672,467 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,886 duplication rate = 1.91% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8947 >>>>>>> ACTG content number of A's = 10,285,055 bp (25.29%) number of C's = 7,280,237 bp (17.9%) number of T's = 12,711,885 bp (31.25%) number of G's = 10,390,019 bp (25.55%) number of N's = 5,271 bp (0.01%) GC percentage = 43.45% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 204,486 number of insertions = 2,579 mapped reads with insertion percentage = 0.37% number of deletions = 7,700 mapped reads with deletion percentage = 1.11% homopolymer indels = 44.59% >>>>>>> Coverage mean coverageData = 0.0131X std coverageData = 0.1547X There is a 1.23% of reference with a coverageData >= 1X There is a 0.06% 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 3266505 0.01310530335649595 0.24403416873514394 chr2 243199373 3452839 0.014197565385992997 0.199601100442214 chr3 198022430 2688402 0.01357624992279915 0.1214546579801531 chr4 191154276 2622270 0.013718081828313378 0.1326066093513186 chr5 180915260 2444958 0.013514382368850478 0.12196057745067337 chr6 171115067 2354427 0.013759320212287325 0.13410943922207966 chr7 159138663 2241141 0.014082944758685071 0.172243494711532 chr8 146364022 2059249 0.014069366035869115 0.15975938930312658 chr9 141213431 1689410 0.011963522081692074 0.13277836201850798 chr10 135534747 1979403 0.014604395137137785 0.16688650531382254 chr11 135006516 1856725 0.01375285471406432 0.1389813009608065 chr12 133851895 1839879 0.013745632813043102 0.12320437439317694 chr13 115169878 1266153 0.010993786066179562 0.1092546894117809 chr14 107349540 1205587 0.011230481285713939 0.11144035325711059 chr15 102531392 1152510 0.011240557428499557 0.1108963904608481 chr16 90354753 1180128 0.013061050590221855 0.12449617045082904 chr17 81195210 1091918 0.01344805931285848 0.12483624166833235 chr18 78077248 1082515 0.013864666439063016 0.2078249140969567 chr19 59128983 866064 0.014647030205136455 0.20688615383015116 chr20 63025520 854753 0.013562014244388623 0.12296951308302809 chr21 48129895 541780 0.011256621274573735 0.12006954701146681 chr22 51304566 485122 0.009455727585727944 0.1024379711421581 chrMT 16571 14907 0.8995836099209462 1.0769697517686365 chrX 155270560 2307441 0.014860775925584348 0.13429894666010922 chrY 59373566 140652 0.0023689330029461257 0.0953134268910742