BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6008719.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 1,618,530 number of mapped reads = 1,172,870 (72.47%) number of supplementary alignments = 4,654 (0.29%) number of secondary alignments = 0 number of mapped bases = 81,560,084 bp number of sequenced bases = 81,523,468 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,614 duplication rate = 1.4% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 48.978 >>>>>>> ACTG content number of A's = 25,777,594 bp (31.62%) number of C's = 14,159,958 bp (17.37%) number of T's = 24,301,662 bp (29.81%) number of G's = 17,271,016 bp (21.19%) number of N's = 13,238 bp (0.02%) GC percentage = 38.55% >>>>>>> Mismatches and indels general error rate = 0.0093 number of mismatches = 751,722 number of insertions = 6,027 mapped reads with insertion percentage = 0.51% number of deletions = 23,309 mapped reads with deletion percentage = 1.96% homopolymer indels = 48.51% >>>>>>> Coverage mean coverageData = 0.0263X std coverageData = 0.2073X There is a 2.43% 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% 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 5835120 0.02341065380936403 0.2555582858529221 chr2 243199373 8853018 0.03640230602074784 0.2706864750308776 chr3 198022430 6611112 0.033385672522047126 0.1941394752095264 chr4 191154276 4061557 0.02124753411218486 0.15441017808661167 chr5 180915260 5353226 0.02958968745920051 0.18164554597349042 chr6 171115067 4542089 0.026544062306330978 0.1834861098080062 chr7 159138663 5221825 0.03281305059098052 0.28201951455479196 chr8 146364022 3724336 0.025445706869137552 0.2426873506391264 chr9 141213431 2181532 0.015448473877814072 0.16309519645514917 chr10 135534747 4155866 0.03066273477457408 0.20227980056365463 chr11 135006516 4026892 0.029827389960940847 0.2220238268576374 chr12 133851895 2432215 0.0181709418458364 0.1429037702837972 chr13 115169878 3472931 0.03015485524782791 0.18445033461503735 chr14 107349540 3657311 0.03406918185210668 0.20121654515213241 chr15 102531392 1506742 0.014695421281318408 0.1288615565168047 chr16 90354753 2067312 0.022879947444491382 0.16748873354409438 chr17 81195210 2020618 0.024885926152540278 0.18179750863418254 chr18 78077248 1349014 0.017277939919193873 0.28295953493316106 chr19 59128983 733377 0.012403003785808392 0.16390589744758663 chr20 63025520 1892263 0.030023758629837565 0.18469212360519263 chr21 48129895 736348 0.015299181517017646 0.13459143939140755 chr22 51304566 532606 0.010381259243085693 0.10736831523094163 chrMT 16571 27399 1.6534306921730735 1.7513169360379277 chrX 155270560 6392543 0.04117034806855852 0.2272787448525919 chrY 59373566 172832 0.0029109250402780252 0.06342774302993115