BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524591.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 = 886,752 number of mapped reads = 830,259 (93.63%) number of supplementary alignments = 1,944 (0.22%) number of secondary alignments = 0 number of mapped bases = 48,960,831 bp number of sequenced bases = 48,945,558 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,499 duplication rate = 2.19% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7816 >>>>>>> ACTG content number of A's = 12,329,511 bp (25.19%) number of C's = 9,122,990 bp (18.64%) number of T's = 15,699,114 bp (32.07%) number of G's = 11,793,629 bp (24.1%) number of N's = 314 bp (0%) GC percentage = 42.73% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 226,315 number of insertions = 3,779 mapped reads with insertion percentage = 0.45% number of deletions = 8,972 mapped reads with deletion percentage = 1.07% homopolymer indels = 42.04% >>>>>>> Coverage mean coverageData = 0.0158X std coverageData = 0.1671X There is a 1.46% of reference with a coverageData >= 1X There is a 0.09% 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 5005700 0.0200829991111637 0.2783366219380737 chr2 243199373 4425195 0.01819575003591806 0.18320362871756612 chr3 198022430 3069248 0.015499496698429567 0.1321605509159515 chr4 191154276 2202903 0.01152421513186553 0.12535277807326484 chr5 180915260 3013559 0.016657295796938303 0.13735835207807445 chr6 171115067 3247250 0.018976996338960612 0.1515119179139672 chr7 159138663 3070088 0.019291905198424344 0.20999002743816564 chr8 146364022 4356011 0.029761487423459843 0.22535797949182496 chr9 141213431 1804782 0.012780526520880298 0.14796302555864554 chr10 135534747 2087976 0.015405466466838942 0.1690510780486363 chr11 135006516 2521844 0.01867942433237815 0.16433269280068213 chr12 133851895 1632573 0.012196861314514822 0.11855180280941427 chr13 115169878 1197644 0.010398934346357474 0.10824035747356239 chr14 107349540 867840 0.008084245167701697 0.09883275576140582 chr15 102531392 1251009 0.012201229063582791 0.12043988528861417 chr16 90354753 1418866 0.015703280158377502 0.13861331151875958 chr17 81195210 1090513 0.013430755336429328 0.12483844658356665 chr18 78077248 1270512 0.01627249976843446 0.21253210434772485 chr19 59128983 932452 0.015769796006807692 0.19053716904159107 chr20 63025520 867030 0.013756808353187724 0.12623053807133355 chr21 48129895 424351 0.008816786323759901 0.10857738941064325 chr22 51304566 836424 0.016303110331349454 0.1356339055526454 chrMT 16571 6624 0.39973447589161787 0.6676195828066411 chrX 155270560 2240658 0.014430668634157049 0.13500100765474435 chrY 59373566 119779 0.0020173792492099935 0.06368997383900292