BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524982.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 = 1,534,498 number of mapped reads = 1,405,520 (91.59%) number of supplementary alignments = 3,315 (0.22%) number of secondary alignments = 0 number of mapped bases = 81,031,945 bp number of sequenced bases = 81,005,096 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 54,235 duplication rate = 3% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5736 >>>>>>> ACTG content number of A's = 20,033,826 bp (24.73%) number of C's = 15,423,008 bp (19.04%) number of T's = 26,991,161 bp (33.32%) number of G's = 18,556,133 bp (22.91%) number of N's = 968 bp (0%) GC percentage = 41.95% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 406,050 number of insertions = 5,160 mapped reads with insertion percentage = 0.37% number of deletions = 15,783 mapped reads with deletion percentage = 1.12% homopolymer indels = 44.11% >>>>>>> Coverage mean coverageData = 0.0262X std coverageData = 0.2338X There is a 2.35% of reference with a coverageData >= 1X There is a 0.2% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% 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 6449413 0.025875213366068205 0.3888830763025731 chr2 243199373 6945094 0.02855720355825095 0.2727589314861871 chr3 198022430 5287389 0.02670096008820819 0.17905261301082115 chr4 191154276 5437689 0.02844659880901644 0.20450159440462393 chr5 180915260 4976534 0.02750754137600112 0.1822512795831591 chr6 171115067 4722040 0.027595699682015726 0.2025292916155101 chr7 159138663 4394420 0.02761377981414862 0.26586942497347954 chr8 146364022 4226188 0.028874500319484252 0.26517471480428084 chr9 141213431 3275348 0.02319430932883431 0.19978089732358978 chr10 135534747 3909974 0.028848498901908895 0.24457305811161675 chr11 135006516 3738322 0.027689937573087214 0.22843980862834748 chr12 133851895 3678363 0.02748084365932959 0.1829501876796862 chr13 115169878 2651053 0.02301863165992066 0.1675771748973033 chr14 107349540 2463827 0.022951444412337492 0.16913674264791864 chr15 102531392 2318398 0.022611591969803745 0.17314073946785039 chr16 90354753 2315068 0.025621983605001942 0.1819349650855407 chr17 81195210 2094993 0.02580192846351404 0.19073182701626504 chr18 78077248 2194500 0.02810677958321482 0.3105206553626559 chr19 59128983 1588050 0.026857387349280133 0.287127486352968 chr20 63025520 1683686 0.026714353169954012 0.1822428332367126 chr21 48129895 1088455 0.022614946490118044 0.17862378789294595 chr22 51304566 898552 0.017514074673197703 0.14378934760518342 chrMT 16571 6045 0.3647939170840625 0.6676548712692317 chrX 155270560 4449295 0.02865511015095199 0.19927633922805382 chrY 59373566 239249 0.004029554162200734 0.10605771932416715