BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251064.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP224945/SRP224945.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 = 3,382,021 number of mapped reads = 3,282,104 (97.05%) number of supplementary alignments = 29,642 (0.88%) number of secondary alignments = 0 number of mapped bases = 255,104,473 bp number of sequenced bases = 254,953,391 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 655,376 duplication rate = 17.39% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 48.1004 >>>>>>> ACTG content number of A's = 74,519,204 bp (29.23%) number of C's = 50,951,747 bp (19.98%) number of T's = 75,386,490 bp (29.57%) number of G's = 54,076,072 bp (21.21%) number of N's = 19,878 bp (0.01%) GC percentage = 41.19% >>>>>>> Mismatches and indels general error rate = 0.0061 number of mismatches = 1,484,661 number of insertions = 32,384 mapped reads with insertion percentage = 0.97% number of deletions = 84,497 mapped reads with deletion percentage = 2.53% homopolymer indels = 45.52% >>>>>>> Coverage mean coverageData = 0.0824X std coverageData = 0.9714X There is a 5.68% of reference with a coverageData >= 1X There is a 1.58% of reference with a coverageData >= 2X There is a 0.49% of reference with a coverageData >= 3X There is a 0.16% of reference with a coverageData >= 4X There is a 0.06% of reference with a coverageData >= 5X There is a 0.03% of reference with a coverageData >= 6X There is a 0.02% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% 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 21080096 0.08457389560525909 2.159647907576182 chr2 243199373 22161064 0.09112303097919582 1.2344339039047685 chr3 198022430 17178556 0.08675055648998954 0.401351174131982 chr4 191154276 15717413 0.08222370604987146 0.472814272674888 chr5 180915260 15566612 0.08604366486276503 0.4161202682010358 chr6 171115067 14844678 0.08675260606945852 0.5214560558961577 chr7 159138663 13893761 0.08730600558080596 1.230189444301428 chr8 146364022 12480776 0.08527215793509692 0.6422671764271771 chr9 141213431 10843614 0.07678882896061069 1.0062322522181404 chr10 135534747 14990280 0.11060101067662007 0.9075040816829029 chr11 135006516 11954739 0.08854934824034716 0.6001770664071133 chr12 133851895 11269997 0.08419751547036372 0.41277600818323246 chr13 115169878 7388276 0.06415111423492174 0.3389173355372904 chr14 107349540 7668717 0.07143688738675545 0.6489025201020504 chr15 102531392 7704412 0.07514198188199767 0.37162379853946775 chr16 90354753 7161050 0.07925482348449339 0.7513171432542903 chr17 81195210 7093160 0.08735934053252649 0.5103125040801028 chr18 78077248 6286198 0.08051254572907078 1.2074055300476287 chr19 59128983 5521131 0.0933743609288866 2.02798071459981 chr20 63025520 5280599 0.08378509213410694 0.45002002964581017 chr21 48129895 3175210 0.06597167934814734 0.39501385554086005 chr22 51304566 3079952 0.06003270742023235 0.3601963582265404 chrMT 16571 192326 11.606179470158711 7.224711011905587 chrX 155270560 11828443 0.07617956037512842 0.46480608561481607 chrY 59373566 743413 0.012520942400528881 0.8480861268965763