BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714251.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 382,698 number of mapped reads = 61,755 (16.14%) number of supplementary alignments = 1,052 (0.27%) number of secondary alignments = 0 number of mapped bases = 6,485,841 bp number of sequenced bases = 6,472,905 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 60,795 duplication rate = 29.92% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 8.3457 >>>>>>> ACTG content number of A's = 127,034 bp (1.96%) number of C's = 43,222 bp (0.67%) number of T's = 56,311 bp (0.87%) number of G's = 6,246,197 bp (96.5%) number of N's = 141 bp (0%) GC percentage = 97.17% >>>>>>> Mismatches and indels general error rate = 0.0321 number of mismatches = 160,670 number of insertions = 6,916 mapped reads with insertion percentage = 7.57% number of deletions = 2,925 mapped reads with deletion percentage = 4.55% homopolymer indels = 63.67% >>>>>>> Coverage mean coverageData = 0.0021X std coverageData = 8.1152X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 13355 5.35806087319638E-5 0.08231982734155094 chr2 243199373 6276140 0.025806563243072178 28.952495603952354 chr3 198022430 5809 2.933506067974219E-5 0.009396661241835098 chr4 191154276 9033 4.725502452270542E-5 0.02238575256853714 chr5 180915260 6200 3.427018815328237E-5 0.019558412952428803 chr6 171115067 2649 1.5480810932914516E-5 0.006727681719299544 chr7 159138663 13063 8.208564627692015E-5 0.07729578366532266 chr8 146364022 7040 4.8099252150914516E-5 0.031084499033627356 chr9 141213431 2742 1.9417416463735663E-5 0.011160138096080895 chr10 135534747 9757 7.198891956466336E-5 0.10244140271637014 chr11 135006516 4193 3.105776020470004E-5 0.026460635682588732 chr12 133851895 7231 5.402239542443534E-5 0.04552878472131112 chr13 115169878 1374 1.1930202791393076E-5 0.003911393218817041 chr14 107349540 7404 6.897095227422493E-5 0.08447342424178793 chr15 102531392 3393 3.309230406235E-5 0.014588404310330884 chr16 90354753 2033 2.250019985113567E-5 0.006980661599022497 chr17 81195210 6651 8.191369909628905E-5 0.09114962606425302 chr18 78077248 1475 1.889154699714826E-5 0.005352640402092158 chr19 59128983 3452 5.8380845143235424E-5 0.019676992635037412 chr20 63025520 6340 1.005941720115915E-4 0.03963749767144159 chr21 48129895 785 1.631002934870313E-5 0.00572409228022251 chr22 51304566 698 1.3605026889809379E-5 0.004294033015926578 chrMT 16571 755 0.0455615231428399 0.28359946802775976 chrX 155270560 92357 5.948133374414313E-4 0.16792952480680526 chrY 59373566 1912 3.220288301362933E-5 0.010497596136848503