BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524920.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 = 780,772 number of mapped reads = 726,081 (93%) number of supplementary alignments = 2,817 (0.36%) number of secondary alignments = 0 number of mapped bases = 42,640,029 bp number of sequenced bases = 42,625,813 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 26,391 duplication rate = 2.92% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2661 >>>>>>> ACTG content number of A's = 10,192,211 bp (23.91%) number of C's = 7,714,486 bp (18.1%) number of T's = 13,973,340 bp (32.78%) number of G's = 10,745,460 bp (25.21%) number of N's = 316 bp (0%) GC percentage = 43.31% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 213,027 number of insertions = 2,568 mapped reads with insertion percentage = 0.35% number of deletions = 8,447 mapped reads with deletion percentage = 1.15% homopolymer indels = 44.88% >>>>>>> Coverage mean coverageData = 0.0138X std coverageData = 0.156X There is a 1.26% of reference with a coverageData >= 1X There is a 0.09% 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 4456788 0.017880749833718568 0.25612955165663986 chr2 243199373 3730778 0.015340409615283013 0.17817605283407176 chr3 198022430 3069340 0.01549996129226371 0.1330517328896311 chr4 191154276 1891539 0.009895352798699622 0.12550030790732047 chr5 180915260 2569234 0.014201311708033916 0.1277869959985722 chr6 171115067 2711560 0.015846412870235443 0.13908020737132892 chr7 159138663 2321197 0.014586002899873553 0.16783780045408067 chr8 146364022 3666573 0.025051053871695327 0.2107892756761937 chr9 141213431 1577121 0.011168349843436634 0.12997537876440163 chr10 135534747 1877386 0.013851695167144112 0.17388094590931868 chr11 135006516 2136895 0.01582808788281004 0.14814494544155565 chr12 133851895 1393430 0.010410237374674449 0.11104248303400992 chr13 115169878 1000844 0.008690154208550955 0.09906925622222934 chr14 107349540 791860 0.0073764638395283294 0.09231200078541407 chr15 102531392 1108958 0.010815789958259808 0.11121525315213847 chr16 90354753 1286238 0.014235421572122499 0.13048636230472735 chr17 81195210 996983 0.012278840094138559 0.12085995448532993 chr18 78077248 1098169 0.014065160185973768 0.19030052472254602 chr19 59128983 889761 0.015047798133108428 0.18706055616782016 chr20 63025520 827996 0.013137471932004686 0.12563061382929092 chr21 48129895 381661 0.007929811606694759 0.11046416469085014 chr22 51304566 826990 0.016119228062469137 0.1366605025433228 chrMT 16571 7958 0.48023655784201313 0.721749262140639 chrX 155270560 1889968 0.012172094954767987 0.12217609326420566 chrY 59373566 130802 0.002203034259387418 0.09862533325954762