BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6238645.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 4,704 number of mapped reads = 4,100 (87.16%) number of supplementary alignments = 36 (0.77%) number of secondary alignments = 0 number of mapped bases = 256,058 bp number of sequenced bases = 255,939 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 246 duplication rate = 5.55% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 42.1636 >>>>>>> ACTG content number of A's = 64,424 bp (25.17%) number of C's = 46,908 bp (18.33%) number of T's = 82,444 bp (32.21%) number of G's = 62,143 bp (24.28%) number of N's = 20 bp (0.01%) GC percentage = 42.61% >>>>>>> Mismatches and indels general error rate = 0.0058 number of mismatches = 1,443 number of insertions = 18 mapped reads with insertion percentage = 0.44% number of deletions = 63 mapped reads with deletion percentage = 1.51% homopolymer indels = 49.38% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.0099X 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 20315 8.150431047471694E-5 0.009714538856937226 chr2 243199373 19896 8.180942144123044E-5 0.009530385619647969 chr3 198022430 16362 8.262700341572417E-5 0.009654526821976652 chr4 191154276 13935 7.289923245033766E-5 0.00901408125967251 chr5 180915260 15414 8.520010970882168E-5 0.009844621592220142 chr6 171115067 25042 1.4634596730164035E-4 0.012879162573862516 chr7 159138663 12134 7.624796998577272E-5 0.009230201196562586 chr8 146364022 15442 1.0550406984579858E-4 0.010883334142461915 chr9 141213431 11784 8.344815303014626E-5 0.010020754125371702 chr10 135534747 12508 9.228629762373777E-5 0.01029282185207293 chr11 135006516 11013 8.157384048041058E-5 0.009339495938874462 chr12 133851895 9379 7.006998294644988E-5 0.013267459205982915 chr13 115169878 6946 6.03109087256305E-5 0.008012856125789369 chr14 107349540 6737 6.275760473682515E-5 0.008238756958014418 chr15 102531392 6069 5.9191627867492525E-5 0.007997946510405135 chr16 90354753 7296 8.074838077416912E-5 0.009380945321569524 chr17 81195210 5568 6.857547384876521E-5 0.00899849889609275 chr18 78077248 9503 1.2171279397552537E-4 0.01208387559347621 chr19 59128983 4993 8.444251442647001E-5 0.009826567329024215 chr20 63025520 5829 9.24863452138118E-5 0.010276159945931179 chr21 48129895 3482 7.234588814290994E-5 0.00849677794856149 chr22 51304566 2742 5.344553543246034E-5 0.007703803487819087 chrMT 16571 0 0.0 0.0 chrX 155270560 13049 8.404040018919233E-5 0.009644232523306626 chrY 59373566 620 1.044235746257855E-5 0.0032314467997708353