BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716508.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 = 486,711 number of mapped reads = 444,179 (91.26%) number of supplementary alignments = 2,051 (0.42%) number of secondary alignments = 0 number of mapped bases = 25,846,405 bp number of sequenced bases = 25,838,963 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,328 duplication rate = 1.49% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9266 >>>>>>> ACTG content number of A's = 6,620,606 bp (25.62%) number of C's = 5,388,765 bp (20.86%) number of T's = 7,743,238 bp (29.97%) number of G's = 6,085,995 bp (23.55%) number of N's = 359 bp (0%) GC percentage = 44.41% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 127,635 number of insertions = 1,967 mapped reads with insertion percentage = 0.44% number of deletions = 4,807 mapped reads with deletion percentage = 1.07% homopolymer indels = 40.12% >>>>>>> Coverage mean coverageData = 0.0083X std coverageData = 0.1087X There is a 0.79% of reference with a coverageData >= 1X There is a 0.03% 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 2113550 0.008479617789999408 0.16034796297352288 chr2 243199373 2137899 0.008790725788589923 0.12346980509048065 chr3 198022430 1695490 0.008562110867945616 0.09570861901546651 chr4 191154276 1631289 0.00853388704733971 0.0985944398893676 chr5 180915260 1539120 0.008507408385561284 0.09546125671145048 chr6 171115067 1475326 0.00862183573817027 0.10082818983645847 chr7 159138663 1439387 0.009044860456066544 0.12342156906142736 chr8 146364022 1283453 0.008768910436199956 0.10527337640360439 chr9 141213431 1084483 0.007679744003953845 0.09828544379112181 chr10 135534747 1249228 0.009217031260625735 0.11092305031817078 chr11 135006516 1182775 0.00876087343813835 0.1060291334171995 chr12 133851895 1175712 0.008783678408139085 0.09718181564509554 chr13 115169878 801536 0.006959597543378487 0.086339373981025 chr14 107349540 778427 0.007251330559963275 0.0896037977238855 chr15 102531392 756560 0.0073788133101713865 0.08979522837958304 chr16 90354753 767568 0.008495048401050911 0.09682626980778483 chr17 81195210 739860 0.00911211387962418 0.10061657517098799 chr18 78077248 679934 0.00870847804471797 0.12971365850497396 chr19 59128983 554084 0.0093707683083269 0.12023901955494909 chr20 63025520 564538 0.008957292220675053 0.09828774234993472 chr21 48129895 336381 0.006989024181332621 0.08917591894426737 chr22 51304566 312514 0.006091348672552848 0.08101951401905053 chrMT 16571 4594 0.2772313077062338 0.564600499040552 chrX 155270560 1460075 0.009403424577073723 0.10295989462390528 chrY 59373566 82622 0.0013915620294728465 0.050076949511308116