BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525113.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 = 688,596 number of mapped reads = 612,500 (88.95%) number of supplementary alignments = 17,886 (2.6%) number of secondary alignments = 0 number of mapped bases = 46,620,372 bp number of sequenced bases = 46,601,713 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 12,534 duplication rate = 1.22% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2845 >>>>>>> ACTG content number of A's = 12,196,710 bp (26.17%) number of C's = 9,009,494 bp (19.33%) number of T's = 14,395,924 bp (30.89%) number of G's = 10,997,969 bp (23.6%) number of N's = 1,616 bp (0%) GC percentage = 42.93% >>>>>>> Mismatches and indels general error rate = 0.0077 number of mismatches = 352,965 number of insertions = 4,116 mapped reads with insertion percentage = 0.66% number of deletions = 10,761 mapped reads with deletion percentage = 1.74% homopolymer indels = 42.91% >>>>>>> Coverage mean coverageData = 0.0151X std coverageData = 0.1831X There is a 1.41% 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 4534199 0.01819132478711056 0.2949677045562686 chr2 243199373 3817762 0.01569807501107332 0.24112746944657015 chr3 198022430 2963186 0.014963890706724485 0.12733383797362224 chr4 191154276 2867937 0.015003258415208038 0.13315435896249844 chr5 180915260 2670020 0.014758401253714032 0.12761420594400558 chr6 171115067 2567170 0.015002594715987225 0.13606517817851127 chr7 159138663 2521119 0.01584227837832218 0.2345101450155698 chr8 146364022 2290004 0.015645948838437906 0.2086458693904142 chr9 141213431 1866716 0.0132191108648865 0.16747140164941612 chr10 135534747 2151512 0.0158742466240041 0.18736896987419466 chr11 135006516 2526796 0.018716104043452243 0.19844499997695159 chr12 133851895 2037274 0.015220359786463987 0.12888359825978782 chr13 115169878 1656141 0.0143799839746292 0.12500678458264608 chr14 107349540 1356836 0.012639420718523805 0.12972502814957776 chr15 102531392 1307491 0.012752104253105235 0.11760851436607851 chr16 90354753 1070328 0.01184584058350533 0.11913354251861157 chr17 81195210 1487550 0.018320662019348184 0.15617931810949887 chr18 78077248 1217928 0.015599012916029007 0.26938496916793125 chr19 59128983 959403 0.016225596168295334 0.24391532027859283 chr20 63025520 942693 0.014957322049861707 0.1323177166859829 chr21 48129895 594751 0.01235720543333826 0.12118182383078158 chr22 51304566 521368 0.010162214411871255 0.10421778748832158 chrMT 16571 5215 0.314706414821073 0.6460042981963345 chrX 155270560 2572292 0.016566514605215566 0.1565567497812092 chrY 59373566 114681 0.0019315161228483397 0.06160701542297302