BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524388.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 = 659,484 number of mapped reads = 610,165 (92.52%) number of supplementary alignments = 2,581 (0.39%) number of secondary alignments = 0 number of mapped bases = 36,067,114 bp number of sequenced bases = 36,056,940 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,621 duplication rate = 1.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1166 >>>>>>> ACTG content number of A's = 9,398,486 bp (26.07%) number of C's = 6,777,608 bp (18.8%) number of T's = 11,472,419 bp (31.82%) number of G's = 8,403,516 bp (23.31%) number of N's = 4,911 bp (0.01%) GC percentage = 42.1% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 173,913 number of insertions = 2,524 mapped reads with insertion percentage = 0.41% number of deletions = 6,499 mapped reads with deletion percentage = 1.06% homopolymer indels = 42.2% >>>>>>> Coverage mean coverageData = 0.0117X std coverageData = 0.1447X There is a 1.1% of reference with a coverageData >= 1X There is a 0.04% of reference with a coverageData >= 2X There is a 0% 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 3006571 0.012062441360978594 0.26774827930345974 chr2 243199373 3121766 0.012836241975015289 0.14920314779176277 chr3 198022430 2392228 0.012080591072435582 0.11381385949620301 chr4 191154276 2225620 0.011643056313320452 0.11836707145587017 chr5 180915260 2151352 0.01189148997160328 0.11315611048375618 chr6 171115067 2047901 0.01196797591178806 0.11720425007959297 chr7 159138663 1996355 0.012544751617022194 0.16771380503409963 chr8 146364022 1870781 0.01278169986337216 0.13533937528647025 chr9 141213431 1502615 0.010640737140647762 0.12525536184747732 chr10 135534747 1622626 0.011972029578510963 0.13568965090077195 chr11 135006516 1590228 0.011778898138516514 0.1309940126560579 chr12 133851895 1640321 0.01225474618794153 0.11611797476210835 chr13 115169878 1112000 0.009655302404679112 0.1019267752335616 chr14 107349540 1121526 0.010447422504092705 0.10915603345639209 chr15 102531392 1059937 0.01033768272647659 0.10550436570715684 chr16 90354753 1097701 0.012148790888731664 0.11774189350503612 chr17 81195210 926566 0.011411584501105422 0.11514500441426867 chr18 78077248 945158 0.012105421543546206 0.2003172376787341 chr19 59128983 783698 0.01325404159242854 0.18295257740394477 chr20 63025520 760806 0.01207139584092285 0.11494339742071254 chr21 48129895 472889 0.009825265565196018 0.1083680914608146 chr22 51304566 415340 0.008095575742712647 0.09353526334373571 chrMT 16571 16427 0.9913101200893126 1.1830203803385992 chrX 155270560 2070838 0.013336964843818428 0.12455796258373926 chrY 59373566 115864 0.001951440814587421 0.06903410409641558