BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524476.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 = 472,877 number of mapped reads = 434,399 (91.86%) number of supplementary alignments = 934 (0.2%) number of secondary alignments = 0 number of mapped bases = 25,197,176 bp number of sequenced bases = 25,189,582 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,306 duplication rate = 1.71% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3535 >>>>>>> ACTG content number of A's = 6,604,598 bp (26.22%) number of C's = 4,661,624 bp (18.51%) number of T's = 7,707,728 bp (30.6%) number of G's = 6,215,146 bp (24.67%) number of N's = 486 bp (0%) GC percentage = 43.18% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 117,496 number of insertions = 1,984 mapped reads with insertion percentage = 0.46% number of deletions = 4,529 mapped reads with deletion percentage = 1.04% homopolymer indels = 42.67% >>>>>>> Coverage mean coverageData = 0.0081X std coverageData = 0.1085X There is a 0.77% 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 2471741 0.00991668943524919 0.16070960787864966 chr2 243199373 1960455 0.008061102197002786 0.11649367761500096 chr3 198022430 1354330 0.006839275732552115 0.08614089613435777 chr4 191154276 1431077 0.007486502682262781 0.09390572621559333 chr5 180915260 1402335 0.007751336178053747 0.09136375674780688 chr6 171115067 1070206 0.006254306057104837 0.09042514028852978 chr7 159138663 1270839 0.007985733799962867 0.12180511085538913 chr8 146364022 2288529 0.015635871225238674 0.13609784552041562 chr9 141213431 1074513 0.007609141654521517 0.10163439037269466 chr10 135534747 1310218 0.009667026566995399 0.1161678858099047 chr11 135006516 876659 0.006493456952848113 0.0980210459964139 chr12 133851895 1162842 0.008687527359997406 0.09683400628400195 chr13 115169878 578165 0.0050201060384903766 0.07346112638644801 chr14 107349540 607388 0.005658040081028759 0.07861435645952318 chr15 102531392 679321 0.006625492805169367 0.0857198000588866 chr16 90354753 802015 0.00887629010507062 0.09965467294645171 chr17 81195210 879081 0.010826759361789938 0.1101090476742453 chr18 78077248 581395 0.007446407434852212 0.13828967627545521 chr19 59128983 525220 0.008882615146619383 0.12864559804324133 chr20 63025520 725209 0.011506592884913921 0.11136356167213239 chr21 48129895 358301 0.0074444583766492736 0.0914751142620162 chr22 51304566 200235 0.0039028689961045572 0.0646889315201369 chrMT 16571 1499 0.09045923601472453 0.3286090747937539 chrX 155270560 1502805 0.009678621626662517 0.10597889592544843 chrY 59373566 82798 0.001394526311591256 0.04880725998281286