BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524370.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 185,534 number of mapped reads = 171,158 (92.25%) number of supplementary alignments = 721 (0.39%) number of secondary alignments = 0 number of mapped bases = 10,096,956 bp number of sequenced bases = 10,094,081 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 2,222 duplication rate = 1.02% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.4368 >>>>>>> ACTG content number of A's = 2,588,454 bp (25.64%) number of C's = 1,940,370 bp (19.22%) number of T's = 3,027,204 bp (29.99%) number of G's = 2,536,290 bp (25.13%) number of N's = 1,763 bp (0.02%) GC percentage = 44.35% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 51,597 number of insertions = 769 mapped reads with insertion percentage = 0.45% number of deletions = 1,782 mapped reads with deletion percentage = 1.03% homopolymer indels = 40.96% >>>>>>> Coverage mean coverageData = 0.0033X std coverageData = 0.0632X There is a 0.32% of reference with a coverageData >= 1X There is a 0.01% 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 874882 0.0035100494293251933 0.0816559271198598 chr2 243199373 811402 0.003336365509462066 0.06980047797941885 chr3 198022430 602083 0.0030404787982856287 0.05615228369375325 chr4 191154276 655314 0.0034281943031188064 0.06179292798162759 chr5 180915260 561015 0.0031009821946473724 0.056866679658213154 chr6 171115067 667856 0.0039029643134815242 0.06381538151339461 chr7 159138663 657722 0.004133011975851525 0.07682447048209874 chr8 146364022 492434 0.0033644470360345794 0.06260657970537148 chr9 141213431 390081 0.0027623505585669113 0.05577659583290607 chr10 135534747 529280 0.0039051240491119227 0.06774723967769083 chr11 135006516 416066 0.0030818216211134578 0.05913942507593526 chr12 133851895 438420 0.0032754112297027995 0.058347777284032634 chr13 115169878 295091 0.0025622237786862984 0.051429572015315374 chr14 107349540 320916 0.0029894492328518592 0.05568331155201498 chr15 102531392 288694 0.0028156644942458208 0.05380176688652882 chr16 90354753 296903 0.0032859699146098047 0.05887213208406479 chr17 81195210 289642 0.003567230135866389 0.061189796131884626 chr18 78077248 292664 0.0037483903121175582 0.07897280126224421 chr19 59128983 196449 0.0033223808364841994 0.06552331669325322 chr20 63025520 217074 0.0034442238636031883 0.06059876727121745 chr21 48129895 131917 0.0027408536835577973 0.05409646482024713 chr22 51304566 140424 0.0027370663266111637 0.05318087978881048 chrMT 16571 4849 0.2926196367147426 0.5932498710872182 chrX 155270560 492483 0.0031717731938366166 0.05835940082233319 chrY 59373566 33295 5.607714382525044E-4 0.027798814650067442