BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525217.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 = 808,671 number of mapped reads = 732,699 (90.61%) number of supplementary alignments = 2,934 (0.36%) number of secondary alignments = 0 number of mapped bases = 44,501,274 bp number of sequenced bases = 44,485,710 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,068 duplication rate = 1.57% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7667 >>>>>>> ACTG content number of A's = 11,952,540 bp (26.87%) number of C's = 8,771,794 bp (19.72%) number of T's = 13,715,778 bp (30.83%) number of G's = 10,044,583 bp (22.58%) number of N's = 1,015 bp (0%) GC percentage = 42.3% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 221,348 number of insertions = 3,214 mapped reads with insertion percentage = 0.44% number of deletions = 9,647 mapped reads with deletion percentage = 1.31% homopolymer indels = 41.73% >>>>>>> Coverage mean coverageData = 0.0144X std coverageData = 0.1685X There is a 1.35% of reference with a coverageData >= 1X There is a 0.06% 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 5071954 0.020348811889218926 0.3075205634146501 chr2 243199373 3613014 0.014856181393197918 0.18640819598490574 chr3 198022430 2681092 0.013539334912716706 0.12200332813963069 chr4 191154276 2415642 0.012637132951187553 0.12205121095142592 chr5 180915260 1911223 0.010564189002077548 0.10703190593162534 chr6 171115067 2439195 0.01425470616214059 0.13031186674509493 chr7 159138663 3184885 0.020013269811120633 0.25920106671866133 chr8 146364022 2899295 0.01980879563421672 0.16819018926873958 chr9 141213431 1441596 0.01020863235027552 0.11950308201925913 chr10 135534747 2985384 0.022026705815889412 0.18543974441115527 chr11 135006516 1978525 0.014655033391129063 0.14028755760129547 chr12 133851895 1930677 0.014423979578324237 0.12555570667655594 chr13 115169878 1351463 0.011734517944006158 0.11238198891523399 chr14 107349540 980466 0.009133397311250705 0.1016513963141356 chr15 102531392 1212216 0.011822876646403083 0.11267244967998477 chr16 90354753 1188672 0.013155611194023186 0.12607722550337908 chr17 81195210 772994 0.00952019213941315 0.10416636202571447 chr18 78077248 933383 0.011954609363280837 0.21629028381400162 chr19 59128983 867109 0.014664703433170835 0.2058055530597502 chr20 63025520 824172 0.013076798097024825 0.12079414225343306 chr21 48129895 631494 0.01312061869239482 0.12335774901694524 chr22 51304566 516742 0.01007204699870183 0.10420579102511479 chrMT 16571 113179 6.82994387785891 4.366449098272204 chrX 155270560 2414468 0.015550069504483014 0.13389900458935372 chrY 59373566 142434 0.002398946359395021 0.08266717931025583