BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525211.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 = 1,044,667 number of mapped reads = 981,525 (93.96%) number of supplementary alignments = 3,588 (0.34%) number of secondary alignments = 0 number of mapped bases = 59,508,590 bp number of sequenced bases = 59,489,690 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,324 duplication rate = 1.76% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.6843 >>>>>>> ACTG content number of A's = 15,833,684 bp (26.62%) number of C's = 12,630,095 bp (21.23%) number of T's = 17,474,750 bp (29.37%) number of G's = 13,549,550 bp (22.78%) number of N's = 1,611 bp (0%) GC percentage = 44.01% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 285,908 number of insertions = 4,421 mapped reads with insertion percentage = 0.45% number of deletions = 11,926 mapped reads with deletion percentage = 1.21% homopolymer indels = 42.36% >>>>>>> Coverage mean coverageData = 0.0192X std coverageData = 0.2068X There is a 1.79% 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 6401385 0.025682523775938756 0.370454437776884 chr2 243199373 4884798 0.0200855698752151 0.23481106226819082 chr3 198022430 4400960 0.022224553046844238 0.15768065869136613 chr4 191154276 2587825 0.013537887062489777 0.13045092376111533 chr5 180915260 2655657 0.014679010493642161 0.12722379881856757 chr6 171115067 3660813 0.021393867087110455 0.165388978157545 chr7 159138663 4385708 0.02755903510387039 0.3460786268867081 chr8 146364022 3623487 0.024756678249795567 0.20399000619656285 chr9 141213431 2055174 0.01455367230614204 0.1570701184006097 chr10 135534747 3482753 0.025696384706425136 0.2282984624259456 chr11 135006516 2692574 0.019944029960746488 0.16832170185074083 chr12 133851895 2682276 0.0200391335513031 0.15001402126951038 chr13 115169878 1370668 0.011901271615482652 0.11504359737835866 chr14 107349540 2141809 0.019951729648771666 0.15072686608283276 chr15 102531392 1599971 0.01560469402385564 0.1304999753142908 chr16 90354753 1610752 0.017826975853721828 0.1512557966368482 chr17 81195210 1085174 0.013365000225998553 0.12549941345648505 chr18 78077248 1303523 0.016695298994144875 0.2763751074466798 chr19 59128983 1051814 0.017788467628472488 0.2625978761132033 chr20 63025520 1092649 0.017336612216765527 0.13985003783112426 chr21 48129895 774551 0.01609292935295205 0.14064065098731612 chr22 51304566 688237 0.013414731936334868 0.12142307647011233 chrMT 16571 10860 0.6553617765976706 0.8852451880287924 chrX 155270560 3081196 0.0198440451299976 0.1551481409178041 chrY 59373566 183976 0.003098617994411857 0.10402974540166683