BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524837.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 = 2,111,111 number of mapped reads = 1,955,509 (92.63%) number of supplementary alignments = 14,158 (0.67%) number of secondary alignments = 0 number of mapped bases = 115,027,502 bp number of sequenced bases = 114,994,138 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 66,754 duplication rate = 2.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5918 >>>>>>> ACTG content number of A's = 28,841,241 bp (25.08%) number of C's = 19,896,364 bp (17.3%) number of T's = 38,421,589 bp (33.41%) number of G's = 27,819,461 bp (24.19%) number of N's = 15,483 bp (0.01%) GC percentage = 41.49% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 551,397 number of insertions = 7,848 mapped reads with insertion percentage = 0.4% number of deletions = 21,433 mapped reads with deletion percentage = 1.09% homopolymer indels = 43.99% >>>>>>> Coverage mean coverageData = 0.0372X std coverageData = 0.3798X There is a 3.33% of reference with a coverageData >= 1X There is a 0.26% of reference with a coverageData >= 2X There is a 0.04% 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 9628867 0.038631265837448005 0.8225937111487861 chr2 243199373 7639326 0.031411783286135364 0.3499773565759062 chr3 198022430 8485080 0.04284908532836407 0.2247796073900628 chr4 191154276 6455401 0.033770633516981854 0.21833331666025266 chr5 180915260 7101042 0.03925065248780009 0.21658263410045153 chr6 171115067 7580459 0.0443003595936996 0.2593936989277609 chr7 159138663 5320198 0.03343120961120554 0.5301760768719452 chr8 146364022 12769665 0.08724592851103805 0.5028104462681988 chr9 141213431 4785262 0.03388673418748674 0.29931304159295286 chr10 135534747 4509330 0.03327065641698509 0.3219404472023402 chr11 135006516 5601047 0.04148723458651433 0.31632930612976673 chr12 133851895 4518405 0.033756750324677884 0.20749585208572632 chr13 115169878 3127623 0.027156606000746132 0.17945920426063133 chr14 107349540 2442028 0.022748378800691648 0.18086063289527682 chr15 102531392 3429142 0.03344480098348806 0.19930967251358334 chr16 90354753 3252207 0.03599375674238189 0.23093980710089992 chr17 81195210 3017643 0.037165283518572095 0.24389417021020152 chr18 78077248 2805814 0.03593638443814003 0.5931333604829674 chr19 59128983 1586184 0.026825829221517307 0.5096558920638429 chr20 63025520 2378109 0.037732477256831834 0.21317856689036893 chr21 48129895 1690736 0.03512860354255915 0.22042985702754936 chr22 51304566 646353 0.012598352357176162 0.12116530357922696 chrMT 16571 14345 0.8656689397139581 1.1054796032427643 chrX 155270560 5958759 0.0383766182075984 0.2550391000936447 chrY 59373566 284477 0.004791307296583803 0.12049416937556238