BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524308.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 = 784,095 number of mapped reads = 717,106 (91.46%) number of supplementary alignments = 2,915 (0.37%) number of secondary alignments = 0 number of mapped bases = 41,843,730 bp number of sequenced bases = 41,832,558 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,361 duplication rate = 1.41% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.4699 >>>>>>> ACTG content number of A's = 10,593,257 bp (25.32%) number of C's = 7,952,725 bp (19.01%) number of T's = 13,311,858 bp (31.82%) number of G's = 9,968,095 bp (23.83%) number of N's = 6,623 bp (0.02%) GC percentage = 42.84% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 211,664 number of insertions = 3,186 mapped reads with insertion percentage = 0.44% number of deletions = 6,976 mapped reads with deletion percentage = 0.97% homopolymer indels = 40.66% >>>>>>> Coverage mean coverageData = 0.0135X std coverageData = 0.1541X There is a 1.27% of reference with a coverageData >= 1X There is a 0.05% 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 3572888 0.01433451995291117 0.25351837751442313 chr2 243199373 2736783 0.011253248584649928 0.18251700629072706 chr3 198022430 2954433 0.01491968864335217 0.12659857393543097 chr4 191154276 2197471 0.0114957982943578 0.12017303049657582 chr5 180915260 2443633 0.013507058497995139 0.12051014950236151 chr6 171115067 2649038 0.01548103300570253 0.13459098356767285 chr7 159138663 1890943 0.011882360730905475 0.17620555041942854 chr8 146364022 4146740 0.028331689327312965 0.2022938062974585 chr9 141213431 1747879 0.012377569099641803 0.1302929620510306 chr10 135534747 2185412 0.01612436698612792 0.15911866807162647 chr11 135006516 2054951 0.01522112458631256 0.14204252958307928 chr12 133851895 1673104 0.012499666142193952 0.11665426508405838 chr13 115169878 1050334 0.009119867262514595 0.09878542079014446 chr14 107349540 885387 0.00824770185321707 0.0965776016931878 chr15 102531392 1284682 0.0125296455547975 0.11635382710545214 chr16 90354753 1311955 0.014520044119870484 0.12723292350763615 chr17 81195210 1279716 0.015760979003564372 0.1381740504021108 chr18 78077248 964937 0.01235874758290661 0.1917834182636301 chr19 59128983 773406 0.013079981436514813 0.1889301683931698 chr20 63025520 965020 0.015311575374546691 0.12948110172102328 chr21 48129895 603428 0.01253748839468692 0.12292517644475064 chr22 51304566 314118 0.00612261294637986 0.08094725736935977 chrMT 16571 2952 0.1781425381690906 0.4115086898303076 chrX 155270560 2021973 0.013022256118609993 0.12409256828224692 chrY 59373566 132547 0.002232424442890966 0.07612574956842989