BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524856.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 = 1,609,346 number of mapped reads = 1,479,971 (91.96%) number of supplementary alignments = 7,306 (0.45%) number of secondary alignments = 0 number of mapped bases = 86,366,973 bp number of sequenced bases = 86,341,939 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 44,359 duplication rate = 2.04% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1566 >>>>>>> ACTG content number of A's = 22,024,264 bp (25.51%) number of C's = 15,716,935 bp (18.2%) number of T's = 28,060,772 bp (32.5%) number of G's = 20,528,965 bp (23.78%) number of N's = 11,003 bp (0.01%) GC percentage = 41.98% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 419,343 number of insertions = 5,835 mapped reads with insertion percentage = 0.39% number of deletions = 16,032 mapped reads with deletion percentage = 1.08% homopolymer indels = 43.87% >>>>>>> Coverage mean coverageData = 0.0279X std coverageData = 0.2792X There is a 2.55% of reference with a coverageData >= 1X There is a 0.16% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 7255068 0.029107522263705814 0.5484500860342834 chr2 243199373 5489941 0.02257382875736279 0.26489884378836853 chr3 198022430 6299588 0.03181249720044341 0.19014261185446996 chr4 191154276 4776501 0.02498767539994763 0.18090902374935508 chr5 180915260 5293185 0.029257813851634184 0.18317750713929484 chr6 171115067 5681161 0.0332008226955257 0.21539056666358117 chr7 159138663 3975023 0.02497836116670152 0.37931633579201 chr8 146364022 8861785 0.06054619761678864 0.37945785543026855 chr9 141213431 3616893 0.025612953204146707 0.23320913718716474 chr10 135534747 4308679 0.03179021686593771 0.2593008904276878 chr11 135006516 4169367 0.03088270939455989 0.25305364524061125 chr12 133851895 3468572 0.025913506865181103 0.17661492638955456 chr13 115169878 2331744 0.02024612720350368 0.15183148249350056 chr14 107349540 1848857 0.017222775244309384 0.1518226743873317 chr15 102531392 2588189 0.02524289341551122 0.16990240245066873 chr16 90354753 2726065 0.030170687312929736 0.19961269257626824 chr17 81195210 2147878 0.02645325998910527 0.19665591929047996 chr18 78077248 2082241 0.0266689855667044 0.4248457052784593 chr19 59128983 1248294 0.02111137274253474 0.35877420305292934 chr20 63025520 1825330 0.02896176025203759 0.18457234768928124 chr21 48129895 1247871 0.025927149851459264 0.18385255040757456 chr22 51304566 523310 0.010200066793275281 0.10719436807331688 chrMT 16571 25540 1.5412467563816306 1.5226808055496626 chrX 155270560 4365077 0.02811271499246219 0.2058924570929867 chrY 59373566 210814 0.0035506373324452165 0.09484738519655538