BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714191.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 = 66,126 number of mapped reads = 17,361 (26.25%) number of supplementary alignments = 742 (1.12%) number of secondary alignments = 0 number of mapped bases = 1,910,147 bp number of sequenced bases = 1,877,509 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,153 duplication rate = 49.16% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 33.8199 >>>>>>> ACTG content number of A's = 392,415 bp (20.9%) number of C's = 336,684 bp (17.93%) number of T's = 364,343 bp (19.41%) number of G's = 784,033 bp (41.76%) number of N's = 34 bp (0%) GC percentage = 59.69% >>>>>>> Mismatches and indels general error rate = 0.036 number of mismatches = 62,052 number of insertions = 1,163 mapped reads with insertion percentage = 5.29% number of deletions = 4,257 mapped reads with deletion percentage = 23.74% homopolymer indels = 32.82% >>>>>>> Coverage mean coverageData = 0.0006X std coverageData = 0.5704X There is a 0.01% 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 54651 2.1926123907229904E-4 0.21049476833237205 chr2 243199373 507923 0.002088504562057403 1.9106602912457857 chr3 198022430 18781 9.484279129389534E-5 0.02775232911063189 chr4 191154276 19119 1.0001868856964518E-4 0.030278525091039985 chr5 180915260 24055 1.3296280258503346E-4 0.04148232326186118 chr6 171115067 32392 1.8929951972025935E-4 0.055009927919832155 chr7 159138663 44618 2.803718415052915E-4 0.13256473181150383 chr8 146364022 85856 5.865922432768348E-4 0.27872802453188744 chr9 141213431 8020 5.679346463864333E-5 0.021010693408552578 chr10 135534747 31963 2.3582882402842424E-4 0.29736868056769133 chr11 135006516 26290 1.9473134170798096E-4 0.058728659440736936 chr12 133851895 34785 2.5987678396334994E-4 0.07255722638033581 chr13 115169878 8213 7.131204914535032E-5 0.022501098383846136 chr14 107349540 23008 2.1432788626760767E-4 0.08475475599195335 chr15 102531392 18215 1.7765290848679787E-4 0.04289194327859576 chr16 90354753 13288 1.470647592827795E-4 0.02633208584095662 chr17 81195210 29855 3.6769410412264465E-4 0.07297231333244258 chr18 78077248 9248 1.1844679771500143E-4 0.023332560917282218 chr19 59128983 18803 3.1799971935928613E-4 0.07869187979357246 chr20 63025520 37817 6.000267828016333E-4 0.2569252172807883 chr21 48129895 1905 3.9580389693349635E-5 0.009028124164042396 chr22 51304566 1350 2.6313447422983754E-5 0.007318592193185675 chrMT 16571 92 0.005551867720716915 0.10522790602423623 chrX 155270560 856437 0.005515771953163562 0.6894758663385903 chrY 59373566 3463 5.832561918211212E-5 0.015478960036860155