BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524307.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 = 518,839 number of mapped reads = 471,892 (90.95%) number of supplementary alignments = 1,841 (0.35%) number of secondary alignments = 0 number of mapped bases = 27,206,961 bp number of sequenced bases = 27,199,569 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,922 duplication rate = 1.2% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.5916 >>>>>>> ACTG content number of A's = 6,708,528 bp (24.66%) number of C's = 5,396,295 bp (19.84%) number of T's = 8,444,962 bp (31.05%) number of G's = 6,646,255 bp (24.44%) number of N's = 3,529 bp (0.01%) GC percentage = 44.27% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 140,084 number of insertions = 1,781 mapped reads with insertion percentage = 0.38% number of deletions = 4,634 mapped reads with deletion percentage = 0.97% homopolymer indels = 42.88% >>>>>>> Coverage mean coverageData = 0.0088X std coverageData = 0.1154X There is a 0.84% 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 2362296 0.00947759323737051 0.17413165542586867 chr2 243199373 1782558 0.007329615936139769 0.14400817147176256 chr3 198022430 1876052 0.009473936866646875 0.10060659107021026 chr4 191154276 1391354 0.0072786967109226474 0.09205333192656694 chr5 180915260 1572915 0.008694208548245184 0.09603918678824487 chr6 171115067 1703941 0.009957866539011435 0.10583452350475712 chr7 159138663 1259222 0.00791273456909714 0.1211969310924645 chr8 146364022 2713582 0.018539952393491894 0.15374300525844548 chr9 141213431 1147315 0.008124687516444523 0.09997482120450288 chr10 135534747 1415673 0.010445092725926584 0.11827449656299559 chr11 135006516 1338844 0.009916884308013697 0.1101467715816358 chr12 133851895 1090965 0.008150538324466754 0.0934906153606655 chr13 115169878 551054 0.004784705945420902 0.07110857981545063 chr14 107349540 582941 0.005430307386505802 0.07683777115444404 chr15 102531392 850365 0.00829370384437968 0.09409957570714714 chr16 90354753 890325 0.009853659829051826 0.10395465615743299 chr17 81195210 855538 0.010536803833625161 0.10861823997071056 chr18 78077248 631468 0.008087733829962859 0.13510454309683279 chr19 59128983 539214 0.009119284192660644 0.1276502193317962 chr20 63025520 652811 0.010357883600167043 0.10534902963973553 chr21 48129895 386662 0.008033717921055094 0.09388919392154432 chr22 51304566 216924 0.0042281616805802434 0.066801603176063 chrMT 16571 2544 0.15352121175547642 0.3989487451022237 chrX 155270560 1308407 0.008426626399750217 0.09833085552767587 chrY 59373566 83991 0.0014146194284507013 0.05217447264598903