BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524845.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 = 893,610 number of mapped reads = 817,474 (91.48%) number of supplementary alignments = 5,285 (0.59%) number of secondary alignments = 0 number of mapped bases = 47,541,255 bp number of sequenced bases = 47,526,844 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,742 duplication rate = 1.48% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0039 >>>>>>> ACTG content number of A's = 12,571,444 bp (26.45%) number of C's = 8,583,732 bp (18.06%) number of T's = 15,515,355 bp (32.65%) number of G's = 10,850,069 bp (22.83%) number of N's = 6,244 bp (0.01%) GC percentage = 40.89% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 231,563 number of insertions = 3,856 mapped reads with insertion percentage = 0.47% number of deletions = 9,177 mapped reads with deletion percentage = 1.12% homopolymer indels = 41.46% >>>>>>> Coverage mean coverageData = 0.0154X std coverageData = 0.1767X There is a 1.44% of reference with a coverageData >= 1X There is a 0.06% 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 4008296 0.016081388218487126 0.32019892524340365 chr2 243199373 3081928 0.012672433986908347 0.1758463831507502 chr3 198022430 3479993 0.017573731420223455 0.13764373341335293 chr4 191154276 2645707 0.01384068960089598 0.1269497208296008 chr5 180915260 2923236 0.0161580399574917 0.13221818684466125 chr6 171115067 3112030 0.01818676785487277 0.1482284622771753 chr7 159138663 2200821 0.013829580810289954 0.2161583588919424 chr8 146364022 4866675 0.033250486926356806 0.24442817584675147 chr9 141213431 1942725 0.013757367031185581 0.15292865263459435 chr10 135534747 2404234 0.017738875478182727 0.1700050932296214 chr11 135006516 2282617 0.016907458007434248 0.16523546978841003 chr12 133851895 1890653 0.014124962519208265 0.12470405179868752 chr13 115169878 1277849 0.011095340397946761 0.10916656122123738 chr14 107349540 1000800 0.009322815915186968 0.10726090690138204 chr15 102531392 1403053 0.013684131002532376 0.12296470482008279 chr16 90354753 1470565 0.016275458137769466 0.13758834222680147 chr17 81195210 1161275 0.014302259948585637 0.13253243620620692 chr18 78077248 1148393 0.014708420563183784 0.2564003609544217 chr19 59128983 678949 0.011482507656186138 0.210790886715993 chr20 63025520 995872 0.015801091367433382 0.13092737185617065 chr21 48129895 700309 0.014550395341606293 0.1290955504380945 chr22 51304566 273414 0.005329233269413097 0.07526499115304724 chrMT 16571 18616 1.1234083640094141 1.2862715859017224 chrX 155270560 2453607 0.015802139182083196 0.14200198326029564 chrY 59373566 119638 0.002015004455012859 0.06053048081037294