BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714199.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 = 117,584 number of mapped reads = 8,290 (7.05%) number of supplementary alignments = 245 (0.21%) number of secondary alignments = 0 number of mapped bases = 754,774 bp number of sequenced bases = 745,044 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 6,735 duplication rate = 35.67% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 22.7178 >>>>>>> ACTG content number of A's = 123,961 bp (16.64%) number of C's = 84,395 bp (11.33%) number of T's = 109,138 bp (14.65%) number of G's = 427,511 bp (57.38%) number of N's = 39 bp (0.01%) GC percentage = 68.71% >>>>>>> Mismatches and indels general error rate = 0.0361 number of mismatches = 23,240 number of insertions = 797 mapped reads with insertion percentage = 7.79% number of deletions = 1,399 mapped reads with deletion percentage = 16.42% homopolymer indels = 35.84% >>>>>>> Coverage mean coverageData = 0.0002X std coverageData = 0.4036X 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 41073 1.6478594851725565E-4 0.07016379918549862 chr2 243199373 381941 0.001570485134433303 1.4265154611713586 chr3 198022430 20429 1.0316508084462957E-4 0.039793494724609864 chr4 191154276 18356 9.602714824961593E-5 0.03832525960548393 chr5 180915260 9415 5.204093894566992E-5 0.028451581055927443 chr6 171115067 37152 2.171170584294602E-4 0.07570609875286403 chr7 159138663 17740 1.1147511023138356E-4 0.0705819157397183 chr8 146364022 12829 8.765132185285262E-5 0.03517991706456492 chr9 141213431 5222 3.697948532955056E-5 0.018447774395577796 chr10 135534747 17312 1.2773108286393895E-4 0.06495057768552401 chr11 135006516 11605 8.595881401753971E-5 0.038043598619131244 chr12 133851895 5289 3.9513822348200596E-5 0.010847388739263148 chr13 115169878 11205 9.729106424858764E-5 0.058582751641179924 chr14 107349540 25621 2.38668931417871E-4 0.09324552445335266 chr15 102531392 8727 8.511539568291436E-5 0.04147903275244837 chr16 90354753 1809 2.0021082897542756E-5 0.0060989691335390644 chr17 81195210 9783 1.2048740313621949E-4 0.06110272685912892 chr18 78077248 14425 1.8475292571787366E-4 0.071272409355028 chr19 59128983 1371 2.318659869390955E-5 0.0069971582302998285 chr20 63025520 3352 5.318480513925153E-5 0.024982499989110084 chr21 48129895 8875 1.8439682862387297E-4 0.07919264838360898 chr22 51304566 1145 2.2317701703197335E-5 0.007493620709985606 chrMT 16571 4799 0.28960231730130953 2.4658241630202107 chrX 155270560 84268 5.427171770360073E-4 0.11166088971314699 chrY 59373566 1031 1.7364629909545943E-5 0.007066664464767274