BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716879.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 = 463,645 number of mapped reads = 363,100 (78.31%) number of supplementary alignments = 883 (0.19%) number of secondary alignments = 0 number of mapped bases = 21,170,286 bp number of sequenced bases = 21,163,787 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,324 duplication rate = 1.17% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.1024 >>>>>>> ACTG content number of A's = 5,395,808 bp (25.5%) number of C's = 3,967,452 bp (18.75%) number of T's = 6,775,847 bp (32.02%) number of G's = 5,024,486 bp (23.74%) number of N's = 194 bp (0%) GC percentage = 42.49% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 101,055 number of insertions = 1,298 mapped reads with insertion percentage = 0.36% number of deletions = 4,174 mapped reads with deletion percentage = 1.14% homopolymer indels = 44.12% >>>>>>> Coverage mean coverageData = 0.0068X std coverageData = 0.0931X There is a 0.66% of reference with a coverageData >= 1X There is a 0.02% 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 2544963 0.010210458011256068 0.12052990174915458 chr2 243199373 2165343 0.00890357147425705 0.11918257280431722 chr3 198022430 1348173 0.006808183295195397 0.08512361523293728 chr4 191154276 886595 0.004638112306731762 0.07110138331141816 chr5 180915260 1509099 0.00834146881805327 0.09366994586315908 chr6 171115067 834744 0.004878261246275876 0.0742718212970975 chr7 159138663 1191373 0.0074863831173446515 0.11571052381911603 chr8 146364022 943443 0.006445866867473757 0.08701355506548013 chr9 141213431 567837 0.004021126007482957 0.07144901603269045 chr10 135534747 964921 0.007119362535129091 0.09789241769692375 chr11 135006516 938449 0.006951138565785966 0.09157997061101758 chr12 133851895 901865 0.0067377828307921975 0.08455936464582976 chr13 115169878 642305 0.005577022491940123 0.07649840501946097 chr14 107349540 465588 0.004337121519104786 0.06837186065467796 chr15 102531392 892684 0.008706445729323562 0.09626166684616663 chr16 90354753 659767 0.007301962299647922 0.09016592639919675 chr17 81195210 803307 0.009893526970371774 0.10394777849739509 chr18 78077248 674132 0.008634167023919696 0.11563086424141232 chr19 59128983 336631 0.005693164044441624 0.09602941901019184 chr20 63025520 579264 0.009190943605066646 0.0986289048485647 chr21 48129895 273866 0.005690143309059785 0.07786913084249254 chr22 51304566 234678 0.004574212751356283 0.06946399881019126 chrMT 16571 229 0.013819322913523625 0.13041375299706878 chrX 155270560 761021 0.004901257521065165 0.07628425961210686 chrY 59373566 50009 8.422771844291784E-4 0.032404916602687864