BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524848.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 = 1,549,865 number of mapped reads = 1,422,605 (91.79%) number of supplementary alignments = 8,495 (0.55%) number of secondary alignments = 0 number of mapped bases = 82,765,950 bp number of sequenced bases = 82,742,509 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 41,530 duplication rate = 1.98% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.0197 >>>>>>> ACTG content number of A's = 20,372,484 bp (24.62%) number of C's = 14,359,218 bp (17.35%) number of T's = 27,644,434 bp (33.41%) number of G's = 20,355,308 bp (24.6%) number of N's = 11,065 bp (0.01%) GC percentage = 41.95% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 402,464 number of insertions = 5,930 mapped reads with insertion percentage = 0.41% number of deletions = 15,308 mapped reads with deletion percentage = 1.07% homopolymer indels = 42.2% >>>>>>> Coverage mean coverageData = 0.0267X std coverageData = 0.2712X There is a 2.45% of reference with a coverageData >= 1X There is a 0.15% of reference with a coverageData >= 2X There is a 0.02% 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 6884748 0.02762178875373795 0.5318684855212444 chr2 243199373 5390360 0.02216436635303332 0.26621431489389397 chr3 198022430 5952548 0.030059968459128596 0.18505012164867984 chr4 191154276 4516157 0.023625717899190494 0.17230957079206152 chr5 180915260 4989164 0.027577353065739177 0.17716892954682176 chr6 171115067 5437878 0.03177907179851088 0.2072300075281622 chr7 159138663 3796388 0.023855849536702466 0.35504747015894195 chr8 146364022 8946947 0.06112804825765173 0.365005180138798 chr9 141213431 3384696 0.023968654936229117 0.23028427084875105 chr10 135534747 4093402 0.030201864028270183 0.2567884772448263 chr11 135006516 4058033 0.03005805290168365 0.2515525099144084 chr12 133851895 3255888 0.024324556630296493 0.17231558241173175 chr13 115169878 2188667 0.01900381452171027 0.14780485240173172 chr14 107349540 1759447 0.016389888582661834 0.149562326640818 chr15 102531392 2441995 0.023817047173220862 0.164811523356694 chr16 90354753 2327539 0.025760006227895947 0.18696230055000226 chr17 81195210 2205354 0.027161134259028333 0.19558171362902418 chr18 78077248 2026287 0.02595233633234614 0.42106602601215426 chr19 59128983 1209825 0.020460778092530357 0.34028736211450344 chr20 63025520 1751256 0.027786458564721086 0.1789718894090745 chr21 48129895 1201767 0.024969242089557853 0.17754854818218566 chr22 51304566 484973 0.009452823360790149 0.10286581562212434 chrMT 16571 5772 0.34831935308671774 0.6578418188209709 chrX 155270560 4248860 0.027364234404770614 0.202400834740184 chrY 59373566 207999 0.0035032256610627024 0.09324265415181594