BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714063.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 570,468 number of mapped reads = 83,216 (14.59%) number of supplementary alignments = 1,541 (0.27%) number of secondary alignments = 0 number of mapped bases = 8,607,472 bp number of sequenced bases = 8,591,412 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 82,232 duplication rate = 28.16% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 7.4108 >>>>>>> ACTG content number of A's = 153,040 bp (1.78%) number of C's = 47,792 bp (0.56%) number of T's = 52,389 bp (0.61%) number of G's = 8,337,991 bp (97.05%) number of N's = 200 bp (0%) GC percentage = 97.61% >>>>>>> Mismatches and indels general error rate = 0.0327 number of mismatches = 212,134 number of insertions = 9,880 mapped reads with insertion percentage = 8.4% number of deletions = 4,031 mapped reads with deletion percentage = 4.66% homopolymer indels = 63.76% >>>>>>> Coverage mean coverageData = 0.0028X std coverageData = 10.661X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 8792 3.527373358078815E-5 0.014641905036892363 chr2 243199373 8409000 0.0345765694058759 38.03579793872188 chr3 198022430 5706 2.8814917582821298E-5 0.013126034553734588 chr4 191154276 5812 3.040476060289648E-5 0.011422787919876347 chr5 180915260 4634 2.5614201919727502E-5 0.0066696520985356795 chr6 171115067 6330 3.699265126664737E-5 0.013896137106807193 chr7 159138663 18272 1.1481810677270802E-4 0.12461217117039676 chr8 146364022 8858 6.052033743647739E-5 0.03088934460987801 chr9 141213431 3122 2.2108378628658912E-5 0.012358513604682927 chr10 135534747 5510 4.065378157233731E-5 0.017126958884797015 chr11 135006516 8996 6.66338208446176E-5 0.03818492096445091 chr12 133851895 11622 8.68273101400619E-5 0.06046736560237914 chr13 115169878 1770 1.5368601849174487E-5 0.004330665971604387 chr14 107349540 10314 9.607866042090167E-5 0.11422157152090483 chr15 102531392 3846 3.751046313698735E-5 0.017808164848884374 chr16 90354753 4068 4.502253467507127E-5 0.01330248284695947 chr17 81195210 10532 1.2971208523261408E-4 0.15210944746517735 chr18 78077248 2224 2.8484610523157783E-5 0.007938117201979721 chr19 59128983 3117 5.2715264864271384E-5 0.021484444495012116 chr20 63025520 3384 5.369253597590309E-5 0.019250792965618903 chr21 48129895 864 1.795142083729873E-5 0.005696799064763612 chr22 51304566 1109 2.1616009771917766E-5 0.006478009611535532 chrMT 16571 301 0.018164262868867298 0.16724985994742483 chrX 155270560 68050 4.382672413881936E-4 0.0706739161497089 chrY 59373566 1239 2.086787241312068E-5 0.010569576475405957