BamQC report ----------------------------------- >>>>>>> Input bam file = SRR3081042.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP064210/SRP064210.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 = 4,684 number of mapped reads = 1,132 (24.17%) number of supplementary alignments = 3 (0.06%) number of secondary alignments = 0 number of mapped bases = 71,856 bp number of sequenced bases = 71,825 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 0 duplication rate = 0% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 40.5859 >>>>>>> ACTG content number of A's = 20,723 bp (28.85%) number of C's = 13,411 bp (18.67%) number of T's = 21,921 bp (30.52%) number of G's = 15,770 bp (21.96%) number of N's = 0 bp (0%) GC percentage = 40.63% >>>>>>> Mismatches and indels general error rate = 0.0086 number of mismatches = 602 number of insertions = 5 mapped reads with insertion percentage = 0.44% number of deletions = 19 mapped reads with deletion percentage = 1.68% homopolymer indels = 37.5% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.0048X 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 4665 1.8716101814647033E-5 0.004325706837760323 chr2 243199373 6624 2.7236912325427747E-5 0.0052188284581920034 chr3 198022430 3885 1.961898962657917E-5 0.004428149190368806 chr4 191154276 4717 2.4676403262880712E-5 0.0049669470723594 chr5 180915260 4428 2.4475547281086184E-5 0.004947216210018668 chr6 171115067 4477 2.6163680840565607E-5 0.005114406376837436 chr7 159138663 4806 3.020007777745374E-5 0.0054948050269518186 chr8 146364022 3542 2.419993623842887E-5 0.004919283545549588 chr9 141213431 3180 2.2519104432778776E-5 0.004745376415281967 chr10 135534747 3201 2.3617559857178173E-5 0.004903563735481561 chr11 135006516 4012 2.971708417392239E-5 0.005444459107405537 chr12 133851895 3419 2.5543157233597628E-5 0.00505395931727949 chr13 115169878 2174 1.8876463514183805E-5 0.004343664892139771 chr14 107349540 1852 1.725205343218052E-5 0.004153523299420974 chr15 102531392 2074 2.0227951260039463E-5 0.00449425009786058 chr16 90354753 2109 2.3341328817533263E-5 0.004831230071100143 chr17 81195210 2251 2.772331027901769E-5 0.005259369270567973 chr18 78077248 1880 2.407871752856863E-5 0.004906947905157626 chr19 59128983 1338 2.2628496755981748E-5 0.00475511022927687 chr20 63025520 1455 2.3085886479000886E-5 0.004803070649572993 chr21 48129895 1446 3.0043697373534682E-5 0.005479235246891165 chr22 51304566 621 1.2104185814572528E-5 0.0034762836956409118 chrMT 16571 0 0.0 0.0 chrX 155270560 3429 2.2084031898899572E-5 0.004699313161988107 chrY 59373566 271 4.564320761869011E-6 0.002136422226257018