BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524355.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 = 724,224 number of mapped reads = 659,408 (91.05%) number of supplementary alignments = 2,301 (0.32%) number of secondary alignments = 0 number of mapped bases = 38,248,627 bp number of sequenced bases = 38,235,470 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,763 duplication rate = 1.92% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6008 >>>>>>> ACTG content number of A's = 10,201,254 bp (26.68%) number of C's = 6,967,547 bp (18.22%) number of T's = 11,833,990 bp (30.95%) number of G's = 9,231,943 bp (24.14%) number of N's = 736 bp (0%) GC percentage = 42.37% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 196,620 number of insertions = 3,245 mapped reads with insertion percentage = 0.49% number of deletions = 8,033 mapped reads with deletion percentage = 1.21% homopolymer indels = 42.4% >>>>>>> Coverage mean coverageData = 0.0124X std coverageData = 0.1471X There is a 1.16% of reference with a coverageData >= 1X There is a 0.05% 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 3054789 0.01225589323606941 0.226105732047317 chr2 243199373 3237016 0.013310132999397165 0.1917059702580758 chr3 198022430 2571059 0.012983675637148782 0.1190208905757444 chr4 191154276 2466049 0.012900830949761228 0.1232990379683097 chr5 180915260 2321502 0.012831985538422795 0.1179267054287665 chr6 171115067 2189221 0.01279385292237299 0.12407175197253587 chr7 159138663 2157030 0.01355440569461112 0.18281106671296882 chr8 146364022 1947946 0.013308912759995076 0.15704954521890627 chr9 141213431 1602639 0.011349055034290612 0.1262393512636598 chr10 135534747 1820557 0.013432400475134247 0.14587022815355 chr11 135006516 1745626 0.012929938877913123 0.12982285197338667 chr12 133851895 1738926 0.012991418612340154 0.11988947590645214 chr13 115169878 1220886 0.010600740586006352 0.10826833312504713 chr14 107349540 1156666 0.010774764381850169 0.1097251596157359 chr15 102531392 1084375 0.010576029241854046 0.1075761564004689 chr16 90354753 1107093 0.012252736721000168 0.1216982282959749 chr17 81195210 1011835 0.012461757288391766 0.1183864393408084 chr18 78077248 1033743 0.013240003028795277 0.20226656460931774 chr19 59128983 759602 0.01284652570466162 0.1809307029230015 chr20 63025520 790871 0.012548424828545643 0.11713738216208633 chr21 48129895 507462 0.010543592501084824 0.1116598426580682 chr22 51304566 448418 0.008740313678903355 0.09711460872940945 chrMT 16571 1895 0.11435640576911472 0.33415355304245115 chrX 155270560 2152422 0.013862396065294026 0.12822090495468313 chrY 59373566 120999 0.0020379271138944222 0.06534969375804185