BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714190.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 = 74,550 number of mapped reads = 7,392 (9.92%) number of supplementary alignments = 242 (0.32%) number of secondary alignments = 0 number of mapped bases = 795,822 bp number of sequenced bases = 782,941 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,615 duplication rate = 35.51% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 28.5546 >>>>>>> ACTG content number of A's = 177,398 bp (22.66%) number of C's = 125,444 bp (16.02%) number of T's = 160,898 bp (20.55%) number of G's = 319,176 bp (40.77%) number of N's = 25 bp (0%) GC percentage = 56.79% >>>>>>> Mismatches and indels general error rate = 0.0381 number of mismatches = 26,529 number of insertions = 787 mapped reads with insertion percentage = 9.31% number of deletions = 1,990 mapped reads with deletion percentage = 26.26% homopolymer indels = 26.86% >>>>>>> Coverage mean coverageData = 0.0003X std coverageData = 0.2321X 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 20091 8.060561662552488E-5 0.03263603408265171 chr2 243199373 233081 9.583947405982827E-4 0.7712410219665888 chr3 198022430 24814 1.2530903696111596E-4 0.047530180081677954 chr4 191154276 25365 1.3269386660228307E-4 0.05969073941068222 chr5 180915260 28685 1.5855489470595238E-4 0.0756445396208221 chr6 171115067 35663 2.084153115517291E-4 0.13266984900254264 chr7 159138663 42604 2.67716211741706E-4 0.10732615610935539 chr8 146364022 39032 2.6667755823217267E-4 0.10883254140547863 chr9 141213431 5223 3.698656680893194E-5 0.01685486230413621 chr10 135534747 27219 2.008267296946369E-4 0.09159722998979915 chr11 135006516 27749 2.05538227503034E-4 0.08348143036408473 chr12 133851895 18950 1.4157438712391783E-4 0.0437336443378587 chr13 115169878 23909 2.075976845265044E-4 0.12427754919659112 chr14 107349540 21540 2.0065293246715357E-4 0.09035486076674527 chr15 102531392 11454 1.1171212812559884E-4 0.034643706354064135 chr16 90354753 18723 2.0721654786660753E-4 0.09642388213462395 chr17 81195210 19108 2.3533407943645936E-4 0.1177468540275937 chr18 78077248 2634 3.3735820196941365E-5 0.015017295854245775 chr19 59128983 6116 1.0343489249595245E-4 0.04813549422473921 chr20 63025520 3509 5.5675859556573276E-5 0.023555623007026183 chr21 48129895 12624 2.6229020445608703E-4 0.10715394651864237 chr22 51304566 697 1.3585535447273835E-5 0.005180688454624228 chrMT 16571 6246 0.37692354112606363 2.620225466545936 chrX 155270560 140142 9.025664620517888E-4 0.18280717458733234 chrY 59373566 644 1.0846577751452558E-5 0.0064498749663618364