BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524379.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 = 681,424 number of mapped reads = 629,735 (92.41%) number of supplementary alignments = 2,460 (0.36%) number of secondary alignments = 0 number of mapped bases = 37,009,990 bp number of sequenced bases = 36,999,456 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,036 duplication rate = 1.34% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6402 >>>>>>> ACTG content number of A's = 9,612,638 bp (25.98%) number of C's = 7,264,859 bp (19.64%) number of T's = 11,454,389 bp (30.96%) number of G's = 8,662,880 bp (23.41%) number of N's = 4,690 bp (0.01%) GC percentage = 43.05% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 178,655 number of insertions = 2,513 mapped reads with insertion percentage = 0.4% number of deletions = 6,596 mapped reads with deletion percentage = 1.04% homopolymer indels = 42.97% >>>>>>> Coverage mean coverageData = 0.012X std coverageData = 0.1458X There is a 1.13% of reference with a coverageData >= 1X There is a 0.04% 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 2902977 0.011646819527883944 0.2557675922477239 chr2 243199373 3240063 0.013322661814592754 0.15830661526112844 chr3 198022430 2486631 0.012557319895529006 0.11570603737815788 chr4 191154276 2387064 0.01248763067167799 0.12002551243873656 chr5 180915260 2256759 0.012474121862356996 0.11536234749336867 chr6 171115067 2095149 0.012244094203580564 0.12054512093492524 chr7 159138663 2010204 0.012631776352174079 0.1861663313771906 chr8 146364022 2008487 0.013722545831652536 0.13914604290413923 chr9 141213431 1529750 0.010832893083661426 0.1262478086641686 chr10 135534747 1761099 0.012993708543241682 0.13715460256570053 chr11 135006516 1682584 0.012462983638508233 0.13628758732672933 chr12 133851895 1641663 0.012264772194670833 0.11613122589771792 chr13 115169878 1172429 0.010179996891201014 0.10400034658339372 chr14 107349540 1086273 0.010119027990245697 0.10787779302962147 chr15 102531392 1063130 0.010368824408430932 0.10506939086337444 chr16 90354753 1064139 0.011777343910175927 0.11564004022916201 chr17 81195210 980274 0.01207305209260497 0.11824525577762945 chr18 78077248 1040242 0.013323241106038983 0.19904664918644663 chr19 59128983 743771 0.012578788984075712 0.18746515484364082 chr20 63025520 846877 0.013437048992217756 0.12152205553782848 chr21 48129895 478805 0.009948182932873632 0.10654520621622054 chr22 51304566 432545 0.008430926011536673 0.09489374608870817 chrMT 16571 9316 0.5621869531108563 0.8423151836086549 chrX 155270560 1982096 0.012765433447267788 0.12309397568239515 chrY 59373566 107663 0.001813315373376765 0.058832706403685535