BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9716272.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 = 605,213 number of mapped reads = 554,023 (91.54%) number of supplementary alignments = 2,150 (0.36%) number of secondary alignments = 0 number of mapped bases = 32,368,979 bp number of sequenced bases = 32,358,704 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,804 duplication rate = 1.66% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.5944 >>>>>>> ACTG content number of A's = 7,907,850 bp (24.44%) number of C's = 5,799,183 bp (17.92%) number of T's = 10,624,883 bp (32.83%) number of G's = 8,025,925 bp (24.8%) number of N's = 863 bp (0%) GC percentage = 42.72% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 162,715 number of insertions = 1,843 mapped reads with insertion percentage = 0.33% number of deletions = 6,296 mapped reads with deletion percentage = 1.13% homopolymer indels = 44.17% >>>>>>> Coverage mean coverageData = 0.0105X std coverageData = 0.1277X There is a 0.99% of reference with a coverageData >= 1X There is a 0.04% 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 2616106 0.010495885584975133 0.20498784168427453 chr2 243199373 2682309 0.011029259520336017 0.14280581006794094 chr3 198022430 2147486 0.010844660375089831 0.1079499155737499 chr4 191154276 2107297 0.011024064143875077 0.11259172751398393 chr5 180915260 1964738 0.010859990472887694 0.10872508902501835 chr6 171115067 1893245 0.01106416304065147 0.11746977036853584 chr7 159138663 1794216 0.011274544891708685 0.14395427152687726 chr8 146364022 1638773 0.011196556213794125 0.12209602520605928 chr9 141213431 1373877 0.009729081648048053 0.11521617613590444 chr10 135534747 1574311 0.011615552726121222 0.1307513395415874 chr11 135006516 1471500 0.010899473918725523 0.12063452400359174 chr12 133851895 1451599 0.01084481471106554 0.10943504915942845 chr13 115169878 1028531 0.008930555609340838 0.0990230878684652 chr14 107349540 974535 0.009078147889595056 0.099934232332835 chr15 102531392 926200 0.009033330982183486 0.09894886741885331 chr16 90354753 927071 0.010260345684305063 0.10876577426397151 chr17 81195210 879628 0.01083349621239972 0.10992055323305347 chr18 78077248 859585 0.011009417237656737 0.15841947611904156 chr19 59128983 656394 0.011101053437702455 0.15289030477935997 chr20 63025520 678874 0.010771414500031098 0.10863121517279407 chr21 48129895 428059 0.00889382783818664 0.10239042348887312 chr22 51304566 387308 0.007549191625556291 0.09023535594976388 chrMT 16571 5660 0.3415605576006276 0.6096387121579159 chrX 155270560 1800462 0.011595643114831298 0.11655364777974785 chrY 59373566 101215 0.001704714855765948 0.05872377934928649