BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524892.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 = 1,905,453 number of mapped reads = 1,760,325 (92.38%) number of supplementary alignments = 5,957 (0.31%) number of secondary alignments = 0 number of mapped bases = 102,907,901 bp number of sequenced bases = 102,878,510 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 81,957 duplication rate = 3.45% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.383 >>>>>>> ACTG content number of A's = 26,672,842 bp (25.93%) number of C's = 18,916,576 bp (18.39%) number of T's = 33,276,200 bp (32.35%) number of G's = 23,998,806 bp (23.33%) number of N's = 14,086 bp (0.01%) GC percentage = 41.71% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 500,501 number of insertions = 7,908 mapped reads with insertion percentage = 0.45% number of deletions = 18,747 mapped reads with deletion percentage = 1.06% homopolymer indels = 43.33% >>>>>>> Coverage mean coverageData = 0.0332X std coverageData = 0.3335X There is a 2.96% of reference with a coverageData >= 1X There is a 0.26% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 8244255 0.033076166337816265 0.6654458264766298 chr2 243199373 8659849 0.035608023545356755 0.3545717885126814 chr3 198022430 6878834 0.03473765067926901 0.20440344589632178 chr4 191154276 6632869 0.034699035453436576 0.22764547984114278 chr5 180915260 6276402 0.03469249636542545 0.20619453287419182 chr6 171115067 5924521 0.03462302358213728 0.23047993790418284 chr7 159138663 5794759 0.03641326935114442 0.4640525983249431 chr8 146364022 5353899 0.036579337782887654 0.31727016250169926 chr9 141213431 4324456 0.030623545999671944 0.3021786696690167 chr10 135534747 4926797 0.036350803827449506 0.3039435777390499 chr11 135006516 4710531 0.03489113814328784 0.30447685631038396 chr12 133851895 4632018 0.03460554667530109 0.21255787216264652 chr13 115169878 3286694 0.028537791800039937 0.18648185936781997 chr14 107349540 3108933 0.02896084137854713 0.19709513335741388 chr15 102531392 2900666 0.028290516137730773 0.18510279783184858 chr16 90354753 2950227 0.03265159719931944 0.2208561714480178 chr17 81195210 2736046 0.0336971355822591 0.21789958009019886 chr18 78077248 2792648 0.035767756568469214 0.5855180448971913 chr19 59128983 2006921 0.033941409071757585 0.4415316925477498 chr20 63025520 2148751 0.034093348218309026 0.2054641439628087 chr21 48129895 1368582 0.028435175268925892 0.20584875169149908 chr22 51304566 1183311 0.02306443835817654 0.16598362904046277 chrMT 16571 17624 1.0635447468469013 1.3063492857592072 chrX 155270560 5745634 0.0370040141543896 0.2527143424012628 chrY 59373566 302674 0.005097790488110483 0.13483106395168715