BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524857.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 = 1,389,703 number of mapped reads = 1,285,922 (92.53%) number of supplementary alignments = 6,853 (0.49%) number of secondary alignments = 0 number of mapped bases = 75,515,828 bp number of sequenced bases = 75,493,312 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 33,385 duplication rate = 1.73% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0475 >>>>>>> ACTG content number of A's = 19,310,844 bp (25.58%) number of C's = 15,130,039 bp (20.04%) number of T's = 23,146,167 bp (30.66%) number of G's = 17,896,562 bp (23.71%) number of N's = 9,700 bp (0.01%) GC percentage = 43.75% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 360,970 number of insertions = 5,276 mapped reads with insertion percentage = 0.41% number of deletions = 14,454 mapped reads with deletion percentage = 1.12% homopolymer indels = 43.55% >>>>>>> Coverage mean coverageData = 0.0244X std coverageData = 0.2501X There is a 2.25% of reference with a coverageData >= 1X There is a 0.13% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0.01% 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 6316374 0.025341457424092034 0.4788122027712022 chr2 243199373 4919554 0.020228481427869472 0.24583085810903785 chr3 198022430 5457457 0.027559792090219276 0.1746399417062829 chr4 191154276 4107741 0.02148914000751937 0.16273689214129797 chr5 180915260 4602275 0.025438843577927035 0.16929216814075487 chr6 171115067 4954341 0.028953271543294315 0.19637297035872706 chr7 159138663 3466090 0.021780313687818277 0.3302249880866062 chr8 146364022 8159982 0.055751282921153944 0.3377608808277599 chr9 141213431 2871247 0.02033267642934049 0.20326695124835256 chr10 135534747 3784358 0.02792168122024089 0.2375233574082665 chr11 135006516 3642681 0.026981519914194365 0.23230185487953958 chr12 133851895 2991244 0.02234741614976762 0.16020105282124483 chr13 115169878 2027473 0.01760419508302336 0.14122749878234409 chr14 107349540 1568220 0.014608539542880203 0.1395638085565054 chr15 102531392 2240083 0.021847777117860644 0.15843257430483912 chr16 90354753 2185228 0.02418498117083005 0.17772001759095335 chr17 81195210 2063080 0.025408888036621866 0.18706725127384774 chr18 78077248 1838087 0.02354190301379475 0.38272555010167525 chr19 59128983 1105971 0.018704380557331757 0.33646087535722397 chr20 63025520 1635331 0.02594712427600756 0.17212906630070013 chr21 48129895 1092403 0.022696974510332923 0.16752664467991263 chr22 51304566 456123 0.008890495243639718 0.09786552843027828 chrMT 16571 8757 0.5284533220686742 0.7970486814531196 chrX 155270560 3840457 0.024733967598236265 0.1889068537161895 chrY 59373566 181271 0.0030530589993533488 0.0795582747052327