BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524781.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 = 907,371 number of mapped reads = 793,802 (87.48%) number of supplementary alignments = 2,551 (0.28%) number of secondary alignments = 0 number of mapped bases = 44,990,371 bp number of sequenced bases = 44,975,738 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,818 duplication rate = 1.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.2069 >>>>>>> ACTG content number of A's = 11,148,419 bp (24.79%) number of C's = 8,603,351 bp (19.13%) number of T's = 14,266,601 bp (31.72%) number of G's = 10,951,499 bp (24.35%) number of N's = 5,868 bp (0.01%) GC percentage = 43.48% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 235,234 number of insertions = 3,042 mapped reads with insertion percentage = 0.38% number of deletions = 9,175 mapped reads with deletion percentage = 1.15% homopolymer indels = 42.65% >>>>>>> Coverage mean coverageData = 0.0145X std coverageData = 0.1539X There is a 1.36% of reference with a coverageData >= 1X There is a 0.07% 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 3607538 0.014473536657708067 0.19258953053347164 chr2 243199373 3760895 0.015464246283233634 0.22582298395754313 chr3 198022430 2966333 0.014979782845811963 0.13086845694393803 chr4 191154276 2888547 0.015111077086237924 0.13989150620513166 chr5 180915260 2665347 0.01473257148125592 0.1275862256302166 chr6 171115067 2587120 0.015119182929694905 0.13672601474735135 chr7 159138663 2475873 0.015557960292779385 0.1781826237257016 chr8 146364022 2252898 0.015392430251745883 0.14431866846868188 chr9 141213431 1916836 0.013574034611481113 0.1359801559984405 chr10 135534747 2175508 0.016051293473842543 0.17638512314540938 chr11 135006516 2051210 0.015193414812659857 0.14219926156610652 chr12 133851895 2032550 0.015185067047425813 0.1299490744473532 chr13 115169878 1414132 0.012278661960551872 0.11628531910469618 chr14 107349540 1350066 0.01257635570678738 0.11885512514881226 chr15 102531392 1291202 0.01259323583551855 0.11757298218629106 chr16 90354753 1334031 0.014764369949636185 0.1382598547961778 chr17 81195210 1286259 0.015841562574935148 0.13681650674261367 chr18 78077248 1163944 0.014907595103761854 0.19410270741757935 chr19 59128983 979373 0.016563332401641342 0.17571722436548862 chr20 63025520 968115 0.015360682466404086 0.13404122652649367 chr21 48129895 584780 0.012150036894948556 0.12212326790724626 chr22 51304566 557238 0.010861372455621202 0.1094906979586789 chrMT 16571 15418 0.9304206143262326 1.164931740296064 chrX 155270560 2514342 0.016193295110161255 0.14038921330162943 chrY 59373566 150816 0.0025401202952842683 0.08072625205841738