BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714078.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 = 691,734 number of mapped reads = 104,176 (15.06%) number of supplementary alignments = 1,716 (0.25%) number of secondary alignments = 0 number of mapped bases = 10,885,609 bp number of sequenced bases = 10,863,447 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 102,783 duplication rate = 27.98% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 11.6401 >>>>>>> ACTG content number of A's = 194,909 bp (1.79%) number of C's = 70,183 bp (0.65%) number of T's = 76,966 bp (0.71%) number of G's = 10,521,138 bp (96.85%) number of N's = 251 bp (0%) GC percentage = 97.5% >>>>>>> Mismatches and indels general error rate = 0.0331 number of mismatches = 273,532 number of insertions = 12,525 mapped reads with insertion percentage = 8.49% number of deletions = 5,336 mapped reads with deletion percentage = 4.93% homopolymer indels = 61.79% >>>>>>> Coverage mean coverageData = 0.0035X std coverageData = 13.461X 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 8802 3.5313853841912795E-5 0.013809794416951104 chr2 243199373 10592419 0.04355446672964901 48.02550095615519 chr3 198022430 9100 4.595439011631157E-5 0.014667142412607645 chr4 191154276 7930 4.1484816170159856E-5 0.01400232278965816 chr5 180915260 9787 5.4097150234866865E-5 0.01683631030688423 chr6 171115067 7546 4.409898048311549E-5 0.016667140772773235 chr7 159138663 17959 1.1285126858204156E-4 0.15136583626650235 chr8 146364022 7114 4.860484088090993E-5 0.027561033150086713 chr9 141213431 6279 4.446460903566602E-5 0.02055412416535 chr10 135534747 8161 6.021334145405532E-5 0.020671327544011926 chr11 135006516 8109 6.0063767588817713E-5 0.046892089640355065 chr12 133851895 12983 9.69952648036847E-5 0.08114253602573095 chr13 115169878 2973 2.5814041411071045E-5 0.00628539584353834 chr14 107349540 13151 1.2250634702300542E-4 0.14057869882917576 chr15 102531392 8620 8.407181285513027E-5 0.024656116226614105 chr16 90354753 5177 5.729637709263618E-5 0.014631305702491488 chr17 81195210 11858 1.4604309786254632E-4 0.14315960657138052 chr18 78077248 2661 3.4081631565702725E-5 0.00941293976939115 chr19 59128983 2967 5.017843787369047E-5 0.01492473821768168 chr20 63025520 2673 4.2411391449051116E-5 0.020016129275109533 chr21 48129895 1460 3.033457687784276E-5 0.009399113824893283 chr22 51304566 2182 4.253032761255597E-5 0.013973672702997703 chrMT 16571 3991 0.24084243558023052 1.116048436069716 chrX 155270560 129975 8.370872108659877E-4 0.11562949253615709 chrY 59373566 1732 2.9171230847074267E-5 0.011447740721276006