BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525194.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 = 443,520 number of mapped reads = 407,035 (91.77%) number of supplementary alignments = 1,214 (0.27%) number of secondary alignments = 0 number of mapped bases = 25,015,998 bp number of sequenced bases = 25,007,198 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,495 duplication rate = 0.99% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1739 >>>>>>> ACTG content number of A's = 6,960,261 bp (27.83%) number of C's = 4,953,559 bp (19.81%) number of T's = 7,258,119 bp (29.02%) number of G's = 5,834,683 bp (23.33%) number of N's = 576 bp (0%) GC percentage = 43.14% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 123,470 number of insertions = 2,296 mapped reads with insertion percentage = 0.56% number of deletions = 5,456 mapped reads with deletion percentage = 1.33% homopolymer indels = 43.12% >>>>>>> Coverage mean coverageData = 0.0081X std coverageData = 0.1117X There is a 0.78% of reference with a coverageData >= 1X There is a 0.02% 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 2694476 0.010810308071408977 0.1976813818937714 chr2 243199373 2151459 0.008846482511285093 0.11585652873475831 chr3 198022430 1983432 0.010016198670019351 0.10220159683824287 chr4 191154276 1409681 0.007374572149251843 0.08932822304495384 chr5 180915260 1139449 0.006298247035656362 0.08108397321905696 chr6 171115067 1274657 0.00744912194085165 0.09143360162770157 chr7 159138663 1495839 0.009399595119132048 0.13873516265367958 chr8 146364022 1170112 0.007994532973410637 0.10000390596865377 chr9 141213431 961378 0.006807978484709432 0.0912350106630202 chr10 135534747 1413365 0.0104280638823932 0.12380314297636039 chr11 135006516 1169225 0.00866050791207737 0.10160090314536853 chr12 133851895 1164347 0.008698771130584293 0.09565778325344011 chr13 115169878 784179 0.006808889734171638 0.08425688743975507 chr14 107349540 947654 0.008827741600010583 0.09643328155170847 chr15 102531392 663002 0.006466331794266482 0.08203351287571603 chr16 90354753 699732 0.007744274393622658 0.09354422367504424 chr17 81195210 529594 0.006522478358021366 0.08378827847029986 chr18 78077248 541688 0.006937846989688981 0.13200253506123832 chr19 59128983 468203 0.007918333383139704 0.13827954293933822 chr20 63025520 489612 0.007768472199832703 0.09075650119749111 chr21 48129895 327479 0.006804066370807583 0.08631730166401047 chr22 51304566 214013 0.004171422091359276 0.06579814649573013 chrMT 16571 4502 0.27167943998551686 0.5302076772766477 chrX 155270560 1243140 0.008006282710643924 0.09451850569992767 chrY 59373566 75780 0.0012763255621196813 0.052940861274330155