BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525278.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 = 855,455 number of mapped reads = 790,029 (92.35%) number of supplementary alignments = 3,096 (0.36%) number of secondary alignments = 0 number of mapped bases = 46,264,504 bp number of sequenced bases = 46,249,172 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 20,938 duplication rate = 1.95% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5297 >>>>>>> ACTG content number of A's = 11,245,779 bp (24.32%) number of C's = 8,512,661 bp (18.41%) number of T's = 15,067,781 bp (32.58%) number of G's = 11,421,926 bp (24.7%) number of N's = 1,025 bp (0%) GC percentage = 43.1% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 229,040 number of insertions = 2,842 mapped reads with insertion percentage = 0.36% number of deletions = 9,606 mapped reads with deletion percentage = 1.21% homopolymer indels = 42.83% >>>>>>> Coverage mean coverageData = 0.0149X std coverageData = 0.1734X There is a 1.4% 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 4807207 0.019286640012022276 0.291928744258401 chr2 243199373 3764785 0.015480241390260493 0.21068777703757427 chr3 198022430 3258333 0.016454363275917785 0.13414024783391765 chr4 191154276 2546300 0.013320654150577307 0.12577500554209778 chr5 180915260 2004831 0.011081602513795686 0.11028435480202559 chr6 171115067 2766124 0.0161652860177415 0.1400593260424922 chr7 159138663 3315856 0.020836269059266888 0.27207499000505986 chr8 146364022 2978267 0.020348354461043713 0.19618618031394502 chr9 141213431 1521361 0.010773486553131055 0.126772933214735 chr10 135534747 3031133 0.022364250253848188 0.1848458616651542 chr11 135006516 2032562 0.015055288146240289 0.15425170664736906 chr12 133851895 2020194 0.015092756064454671 0.129340439586342 chr13 115169878 1382029 0.011999917200572184 0.11484448683162962 chr14 107349540 1388210 0.012931680936872202 0.11995665008019862 chr15 102531392 1216666 0.011866277988306254 0.11450932931395151 chr16 90354753 1175390 0.013008612839658805 0.12672184263537561 chr17 81195210 781546 0.009625518549677992 0.10452952327390146 chr18 78077248 961843 0.012319120161612254 0.2375776227543037 chr19 59128983 854133 0.01444525098630565 0.20432682439202562 chr20 63025520 805750 0.012784503800999976 0.11951559246456088 chr21 48129895 637676 0.01324906277065429 0.12486820272285197 chr22 51304566 344948 0.006723534119750667 0.0851210726005257 chrMT 16571 28191 1.7012250316818538 1.6627301980630895 chrX 155270560 2500977 0.016107219552760035 0.13903513697462883 chrY 59373566 140192 0.002361185447409374 0.07891200539667113