BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524673.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 = 1,027,963 number of mapped reads = 951,964 (92.61%) number of supplementary alignments = 4,351 (0.42%) number of secondary alignments = 0 number of mapped bases = 56,479,470 bp number of sequenced bases = 56,462,396 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 27,720 duplication rate = 2.12% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.919 >>>>>>> ACTG content number of A's = 13,893,129 bp (24.61%) number of C's = 11,088,355 bp (19.64%) number of T's = 18,450,404 bp (32.68%) number of G's = 13,022,736 bp (23.06%) number of N's = 7,772 bp (0.01%) GC percentage = 42.7% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 282,464 number of insertions = 4,202 mapped reads with insertion percentage = 0.44% number of deletions = 10,777 mapped reads with deletion percentage = 1.12% homopolymer indels = 44.29% >>>>>>> Coverage mean coverageData = 0.0182X std coverageData = 0.1956X There is a 1.7% of reference with a coverageData >= 1X There is a 0.09% 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 4598207 0.01844812655451719 0.33586090904330096 chr2 243199373 4750568 0.01953363588647081 0.24836072221263147 chr3 198022430 3725627 0.0188141666577872 0.14443315586516567 chr4 191154276 3648077 0.019084464529582377 0.1567215957397463 chr5 180915260 3423329 0.01892227886138516 0.1452683474811016 chr6 171115067 3314816 0.019371853444092098 0.16177596424004553 chr7 159138663 3088695 0.019408828387605593 0.22299102605848445 chr8 146364022 2894596 0.019776690749862012 0.21064307563527424 chr9 141213431 2368595 0.016773156655332595 0.16107717226713342 chr10 135534747 2726827 0.02011902527106204 0.20269903064825046 chr11 135006516 2547691 0.01887087435098318 0.17952546369316302 chr12 133851895 2530109 0.01890230242911391 0.14623535401942866 chr13 115169878 1782338 0.015475730555171726 0.13249093760013123 chr14 107349540 1715771 0.015983030761007454 0.13525579306206506 chr15 102531392 1620443 0.015804359702831304 0.13250431377734134 chr16 90354753 1599836 0.017706163172179774 0.1478131596428841 chr17 81195210 1541791 0.0189886940374931 0.1498801409106894 chr18 78077248 1519642 0.019463314075823985 0.2809630721456858 chr19 59128983 1189683 0.020120132964235152 0.2532168053823681 chr20 63025520 1206314 0.019140088015140534 0.14785328199344686 chr21 48129895 748363 0.01554881846303633 0.14184033925300388 chr22 51304566 661964 0.012902633266598532 0.11989470653542088 chrMT 16571 11428 0.6896385251342707 0.9149846572742302 chrX 155270560 3082386 0.019851709171397332 0.1580641019645943 chrY 59373566 182374 0.0030716362901295167 0.11770167307034589