BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751181.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,411,779 number of mapped reads = 4,402,225 (99.78%) number of supplementary alignments = 37,326 (0.85%) number of secondary alignments = 0 number of mapped bases = 436,758,875 bp number of sequenced bases = 436,662,890 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 461,689 duplication rate = 7.71% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.8011 >>>>>>> ACTG content number of A's = 134,358,687 bp (30.77%) number of C's = 84,182,840 bp (19.28%) number of T's = 134,913,285 bp (30.9%) number of G's = 83,204,789 bp (19.05%) number of N's = 3,289 bp (0%) GC percentage = 38.33% >>>>>>> Mismatches and indels general error rate = 0.0024 number of mismatches = 991,067 number of insertions = 40,381 mapped reads with insertion percentage = 0.91% number of deletions = 44,608 mapped reads with deletion percentage = 1% homopolymer indels = 47.29% >>>>>>> Coverage mean coverageData = 0.1411X std coverageData = 1.333X There is a 6.04% of reference with a coverageData >= 1X There is a 2.14% of reference with a coverageData >= 2X There is a 1.17% of reference with a coverageData >= 3X There is a 0.76% of reference with a coverageData >= 4X There is a 0.55% of reference with a coverageData >= 5X There is a 0.41% of reference with a coverageData >= 6X There is a 0.33% of reference with a coverageData >= 7X There is a 0.27% of reference with a coverageData >= 8X There is a 0.22% of reference with a coverageData >= 9X There is a 0.19% of reference with a coverageData >= 10X There is a 0.16% of reference with a coverageData >= 11X There is a 0.14% of reference with a coverageData >= 12X There is a 0.12% of reference with a coverageData >= 13X There is a 0.11% of reference with a coverageData >= 14X There is a 0.1% of reference with a coverageData >= 15X There is a 0.09% of reference with a coverageData >= 16X There is a 0.08% of reference with a coverageData >= 17X There is a 0.07% of reference with a coverageData >= 18X There is a 0.06% of reference with a coverageData >= 19X There is a 0.06% of reference with a coverageData >= 20X There is a 0.05% of reference with a coverageData >= 21X There is a 0.05% of reference with a coverageData >= 22X There is a 0.05% of reference with a coverageData >= 23X There is a 0.04% of reference with a coverageData >= 24X There is a 0.04% of reference with a coverageData >= 25X There is a 0.04% of reference with a coverageData >= 26X There is a 0.03% of reference with a coverageData >= 27X There is a 0.03% of reference with a coverageData >= 28X There is a 0.03% of reference with a coverageData >= 29X There is a 0.03% of reference with a coverageData >= 30X There is a 0.03% of reference with a coverageData >= 31X There is a 0.02% of reference with a coverageData >= 32X There is a 0.02% of reference with a coverageData >= 33X There is a 0.02% of reference with a coverageData >= 34X There is a 0.02% of reference with a coverageData >= 35X There is a 0.02% of reference with a coverageData >= 36X There is a 0.02% of reference with a coverageData >= 37X There is a 0.02% of reference with a coverageData >= 38X There is a 0.02% of reference with a coverageData >= 39X There is a 0.02% of reference with a coverageData >= 40X There is a 0.01% of reference with a coverageData >= 41X There is a 0.01% of reference with a coverageData >= 42X There is a 0.01% of reference with a coverageData >= 43X There is a 0.01% of reference with a coverageData >= 44X There is a 0.01% of reference with a coverageData >= 45X There is a 0.01% of reference with a coverageData >= 46X There is a 0.01% of reference with a coverageData >= 47X There is a 0.01% of reference with a coverageData >= 48X There is a 0.01% of reference with a coverageData >= 49X There is a 0.01% of reference with a coverageData >= 50X There is a 0.01% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 36512405 0.14648872228888046 1.0480026463797256 chr2 243199373 30878593 0.12696822618864234 0.855220027995759 chr3 198022430 30714254 0.15510492422499814 1.296087473555422 chr4 191154276 30824444 0.16125427400849773 1.6234381838852383 chr5 180915260 36157041 0.19985622550579757 1.6202960355328906 chr6 171115067 26331877 0.15388403523811262 1.1634525744755275 chr7 159138663 28557576 0.17945089811392972 1.224405559689815 chr8 146364022 34121537 0.23312789942326126 2.040977010943209 chr9 141213431 20903603 0.14802843364098986 2.1656154617213716 chr10 135534747 12749357 0.09406707344205985 0.7596417243953311 chr11 135006516 18583336 0.13764769694523485 1.0721372127288673 chr12 133851895 22212858 0.16595101623327782 1.7991495999716993 chr13 115169878 22409142 0.1945746786325501 1.8234096310318453 chr14 107349540 9790372 0.09120087519704323 0.609215425735054 chr15 102531392 12662827 0.12350195148038173 1.0133807383331734 chr16 90354753 5780046 0.06397058049619149 0.5207638911510376 chr17 81195210 7903552 0.09734012634489153 0.8906533749396198 chr18 78077248 5645416 0.07230551978471372 0.5910052644406006 chr19 59128983 3121747 0.0527955469824333 0.5297207911588301 chr20 63025520 5419450 0.08598818383410403 1.6051404913017375 chr21 48129895 5513054 0.11454531533883462 0.9733575208168956 chr22 51304566 1265983 0.024675834895474997 0.25197226682478663 chrMT 16571 21918 1.3226721380725364 1.3462968493408574 chrX 155270560 28200760 0.18162335474284372 1.6993686649033322 chrY 59373566 477727 0.008046122747621391 0.15331430561666406