BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714192.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 = 4,480 number of mapped reads = 1,521 (33.95%) number of supplementary alignments = 76 (1.7%) number of secondary alignments = 0 number of mapped bases = 177,774 bp number of sequenced bases = 173,965 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 739 duplication rate = 34.97% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 19.6894 >>>>>>> ACTG content number of A's = 42,660 bp (24.52%) number of C's = 35,214 bp (20.24%) number of T's = 39,789 bp (22.87%) number of G's = 56,298 bp (32.36%) number of N's = 4 bp (0%) GC percentage = 52.6% >>>>>>> Mismatches and indels general error rate = 0.0387 number of mismatches = 6,477 number of insertions = 90 mapped reads with insertion percentage = 5.13% number of deletions = 488 mapped reads with deletion percentage = 31.1% homopolymer indels = 26.82% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.0328X 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 3270 1.3119325387759013E-5 0.005984915526438867 chr2 243199373 28827 1.1853237795970797E-4 0.09134101972738398 chr3 198022430 2735 1.3811566699792543E-5 0.0049951516584039925 chr4 191154276 3669 1.9193920621477493E-5 0.008157053597557308 chr5 180915260 1402 7.74948448240353E-6 0.004399667325135231 chr6 171115067 3923 2.2926093352141806E-5 0.009446879326339306 chr7 159138663 7082 4.450207049936067E-5 0.01980586531043517 chr8 146364022 11021 7.529855936864047E-5 0.0428909502497203 chr9 141213431 1392 9.857419298876748E-6 0.004839983180065886 chr10 135534747 1680 1.239534537958742E-5 0.005533470946494909 chr11 135006516 1731 1.2821603366166415E-5 0.006122655980752793 chr12 133851895 2780 2.0769224074115647E-5 0.009481821519347287 chr13 115169878 342 2.969526458993036E-6 0.002015825837685565 chr14 107349540 2873 2.6763039692578096E-5 0.009460023514966191 chr15 102531392 3088 3.011760534763831E-5 0.014359644577465684 chr16 90354753 854 9.451633385572975E-6 0.004744594609043219 chr17 81195210 2309 2.8437638131608995E-5 0.008514898082362913 chr18 78077248 1431 1.832800254435197E-5 0.006999257674366746 chr19 59128983 1933 3.269124381861937E-5 0.010955577223356569 chr20 63025520 1750 2.7766530129382512E-5 0.007719724055707109 chr21 48129895 527 1.0949535626454202E-5 0.004069305081431811 chr22 51304566 602 1.17338484063972E-5 0.004600822634095107 chrMT 16571 453 0.02733691388570394 0.20400773777444142 chrX 155270560 91117 5.868272774954892E-4 0.0732678466754221 chrY 59373566 983 1.6556189331797926E-5 0.005679184585635923