BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714221.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 = 222,380 number of mapped reads = 15,983 (7.19%) number of supplementary alignments = 621 (0.28%) number of secondary alignments = 0 number of mapped bases = 1,559,343 bp number of sequenced bases = 1,534,762 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,124 duplication rate = 34.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 31.7764 >>>>>>> ACTG content number of A's = 296,499 bp (19.32%) number of C's = 193,587 bp (12.61%) number of T's = 262,529 bp (17.11%) number of G's = 782,115 bp (50.96%) number of N's = 32 bp (0%) GC percentage = 63.57% >>>>>>> Mismatches and indels general error rate = 0.0395 number of mismatches = 53,527 number of insertions = 1,836 mapped reads with insertion percentage = 9.68% number of deletions = 3,693 mapped reads with deletion percentage = 22.26% homopolymer indels = 31.94% >>>>>>> Coverage mean coverageData = 0.0005X std coverageData = 0.6699X 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 38590 1.5482408768000623E-4 0.05295874342584993 chr2 243199373 660731 0.002716828550376238 2.3623204099042296 chr3 198022430 38637 1.9511426054109123E-4 0.07288182626566714 chr4 191154276 34980 1.8299355228653113E-4 0.05599833163162422 chr5 180915260 54617 3.0189272038190696E-4 0.09065096822093485 chr6 171115067 54072 3.159978893033423E-4 0.09810288944578517 chr7 159138663 32396 2.0357089464802152E-4 0.10385666499218886 chr8 146364022 56454 3.8570954274541597E-4 0.12661399795941455 chr9 141213431 39157 2.7728948813657815E-4 0.10391103402884895 chr10 135534747 22665 1.672264898978267E-4 0.06618113305847052 chr11 135006516 41678 3.0871102547376305E-4 0.08431423957482906 chr12 133851895 36124 2.698803778609186E-4 0.08466813649336055 chr13 115169878 28270 2.4546348829161734E-4 0.11929233029416045 chr14 107349540 43263 4.0301057647755176E-4 0.14511954800753582 chr15 102531392 39254 3.8284860113866394E-4 0.1088815732044504 chr16 90354753 15728 1.740694260987023E-4 0.07181072585113751 chr17 81195210 20804 2.562220111260258E-4 0.09004142196065214 chr18 78077248 25484 3.2639470079683135E-4 0.0947269918522505 chr19 59128983 7201 1.2178460772782105E-4 0.02385292177187852 chr20 63025520 28081 4.4554967575039444E-4 0.11417878242156118 chr21 48129895 20620 4.284239556309026E-4 0.18026975568954945 chr22 51304566 5689 1.108868165847071E-4 0.02624789696659401 chrMT 16571 1913 0.11544264075795063 1.000559361387337 chrX 155270560 190755 0.0012285329556356336 0.22036972495334062 chrY 59373566 22180 3.735669169677294E-4 0.15389816049687224