BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751234.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,720,145 number of mapped reads = 4,076,872 (86.37%) number of supplementary alignments = 150,713 (3.19%) number of secondary alignments = 0 number of mapped bases = 400,095,307 bp number of sequenced bases = 399,973,074 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 112,435 duplication rate = 1.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.2162 >>>>>>> ACTG content number of A's = 117,194,217 bp (29.3%) number of C's = 82,594,721 bp (20.65%) number of T's = 117,885,329 bp (29.47%) number of G's = 82,296,631 bp (20.58%) number of N's = 2,176 bp (0%) GC percentage = 41.23% >>>>>>> Mismatches and indels general error rate = 0.0043 number of mismatches = 1,509,686 number of insertions = 156,060 mapped reads with insertion percentage = 3.72% number of deletions = 56,914 mapped reads with deletion percentage = 1.37% homopolymer indels = 51.35% >>>>>>> Coverage mean coverageData = 0.1292X std coverageData = 1.2102X There is a 10.41% of reference with a coverageData >= 1X There is a 1.79% of reference with a coverageData >= 2X There is a 0.34% of reference with a coverageData >= 3X There is a 0.08% of reference with a coverageData >= 4X There is a 0.02% of reference with a coverageData >= 5X There is a 0.01% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% 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 48048534 0.1927719730736398 3.4437446244149705 chr2 243199373 29521183 0.12138675620680979 0.5270676585732358 chr3 198022430 26135168 0.1319808468161915 0.4467433928304053 chr4 191154276 18203779 0.09523082287732867 0.42714290373876446 chr5 180915260 31993586 0.17684293740616464 0.48499529364709626 chr6 171115067 22419860 0.13102212676572778 0.8319300767846756 chr7 159138663 22366374 0.1405464491052058 0.7118378855884823 chr8 146364022 19414087 0.13264248095068062 0.48652538513007326 chr9 141213431 17436500 0.12347621523337961 0.6355396220095118 chr10 135534747 19728554 0.14556085754157197 1.6040675749913629 chr11 135006516 18289162 0.13546873544977636 0.6024101729775047 chr12 133851895 21420712 0.16003293789751724 0.46303972475581834 chr13 115169878 11409677 0.09906823900603594 0.35851539535235694 chr14 107349540 8505270 0.07922968277274406 0.33772525956874766 chr15 102531392 9876913 0.09633062428334144 0.35340070588170513 chr16 90354753 11682578 0.1292967731315695 0.7930878301727315 chr17 81195210 11813412 0.14549395216786803 0.6151539893067636 chr18 78077248 8346931 0.10690606052098557 1.2030994275277265 chr19 59128983 8047569 0.1361019349850817 2.36004997359435 chr20 63025520 7309228 0.11597251399115786 0.4029625765927907 chr21 48129895 5081039 0.1055692932635735 0.4107603814644321 chr22 51304566 4869641 0.09491632772022669 0.35771375150701423 chrMT 16571 665257 40.14585722044536 13.316136529477527 chrX 155270560 16611858 0.10698652725925636 0.42267941075851645 chrY 59373566 898435 0.01513190230143832 0.5985494047050158