BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524816.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 = 836,346 number of mapped reads = 764,532 (91.41%) number of supplementary alignments = 2,582 (0.31%) number of secondary alignments = 0 number of mapped bases = 43,770,128 bp number of sequenced bases = 43,755,922 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,425 duplication rate = 1.73% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6723 >>>>>>> ACTG content number of A's = 10,862,217 bp (24.82%) number of C's = 8,444,270 bp (19.3%) number of T's = 13,809,771 bp (31.56%) number of G's = 10,634,451 bp (24.3%) number of N's = 5,213 bp (0.01%) GC percentage = 43.6% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 220,818 number of insertions = 3,150 mapped reads with insertion percentage = 0.41% number of deletions = 8,779 mapped reads with deletion percentage = 1.14% homopolymer indels = 43.04% >>>>>>> Coverage mean coverageData = 0.0141X std coverageData = 0.1497X There is a 1.32% of reference with a coverageData >= 1X There is a 0.07% of reference with a coverageData >= 2X There is a 0.01% 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 3496545 0.014028229843407292 0.1852369570067119 chr2 243199373 3701986 0.01522202115216802 0.2217344078118161 chr3 198022430 2882267 0.014555255179930879 0.12766621793771393 chr4 191154276 2770052 0.014491185120023158 0.13467270783439703 chr5 180915260 2596831 0.014353852737463937 0.12597824973137633 chr6 171115067 2470784 0.014439312933208857 0.13404620507963078 chr7 159138663 2420455 0.015209723107953974 0.1753484213103884 chr8 146364022 2192470 0.014979569227743687 0.14242694554381857 chr9 141213431 1865596 0.013211179607979358 0.135442560809115 chr10 135534747 2103074 0.015516862255256211 0.1608178179445624 chr11 135006516 1958955 0.014510077424707411 0.13975294462693882 chr12 133851895 1978390 0.014780440725176137 0.12881531002057867 chr13 115169878 1363482 0.011838876828540184 0.1143055664434363 chr14 107349540 1325585 0.012348306289901195 0.11765688744351008 chr15 102531392 1277114 0.01245583401423049 0.11817869964311292 chr16 90354753 1323258 0.014645139918649326 0.13343733554805456 chr17 81195210 1262557 0.015549648803174472 0.1339902625455805 chr18 78077248 1157416 0.014823985599492441 0.18738974493469543 chr19 59128983 966889 0.01635220074730526 0.1628300257444526 chr20 63025520 943814 0.014975108495733157 0.13001944288428235 chr21 48129895 578902 0.012027909057354062 0.12151405034371561 chr22 51304566 559396 0.010903434988612905 0.11021015770621473 chrMT 16571 25827 1.5585661698147366 1.537575658342664 chrX 155270560 2412066 0.015534599733523212 0.1360236083500108 chrY 59373566 136417 0.0022976049644719 0.07009297969153436