BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714236.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 6,570 number of mapped reads = 1,520 (23.14%) number of supplementary alignments = 87 (1.32%) number of secondary alignments = 0 number of mapped bases = 170,970 bp number of sequenced bases = 167,918 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 797 duplication rate = 38.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 17.074 >>>>>>> ACTG content number of A's = 35,182 bp (20.95%) number of C's = 27,362 bp (16.29%) number of T's = 32,556 bp (19.39%) number of G's = 72,818 bp (43.37%) number of N's = 0 bp (0%) GC percentage = 59.66% >>>>>>> Mismatches and indels general error rate = 0.039 number of mismatches = 5,720 number of insertions = 136 mapped reads with insertion percentage = 6.58% number of deletions = 394 mapped reads with deletion percentage = 25.26% homopolymer indels = 37.92% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.0548X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% 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 2757 1.106115599206471E-5 0.0047774778821760315 chr2 243199373 50776 2.0878343300663032E-4 0.18720505776854768 chr3 198022430 2139 1.0801806643823126E-5 0.0054124437322895175 chr4 191154276 1772 9.269999275349718E-6 0.004342096364337133 chr5 180915260 2467 1.3636218415185097E-5 0.006182406672194658 chr6 171115067 2558 1.4949005045826853E-5 0.007171680859836893 chr7 159138663 5868 3.687350320393228E-5 0.023210966579288637 chr8 146364022 7663 5.235576267506505E-5 0.02623524440890518 chr9 141213431 1058 7.492205185496839E-6 0.0038553818480772458 chr10 135534747 1901 1.4025923551545052E-5 0.006311466285178131 chr11 135006516 1677 1.2421622671901259E-5 0.004317799241046622 chr12 133851895 3711 2.7724672855770925E-5 0.008658964216804545 chr13 115169878 1962 1.703570442264426E-5 0.008188314465028882 chr14 107349540 3067 2.8570220235689876E-5 0.011273363603137672 chr15 102531392 771 7.5196482263695395E-6 0.004441901178255552 chr16 90354753 1291 1.4288124942359147E-5 0.005155957573378283 chr17 81195210 3786 4.6628366377770314E-5 0.014125050242291489 chr18 78077248 1461 1.871223739853126E-5 0.008454592924360346 chr19 59128983 1114 1.8840168450047584E-5 0.006812249314104429 chr20 63025520 2689 4.2665256867376896E-5 0.017701622568027705 chr21 48129895 150 3.1165661175865853E-6 0.0024966222225616765 chr22 51304566 0 0.0 0.0 chrMT 16571 301 0.018164262868867298 0.1335452074141861 chrX 155270560 69946 4.5047818466037605E-4 0.0539723512340072 chrY 59373566 85 1.4316135230954462E-6 0.0011964996755445304