BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524338.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 = 590,298 number of mapped reads = 527,838 (89.42%) number of supplementary alignments = 2,277 (0.39%) number of secondary alignments = 0 number of mapped bases = 30,191,808 bp number of sequenced bases = 30,184,023 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,913 duplication rate = 1.21% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.3308 >>>>>>> ACTG content number of A's = 7,471,147 bp (24.75%) number of C's = 5,661,869 bp (18.76%) number of T's = 9,695,387 bp (32.12%) number of G's = 7,351,334 bp (24.36%) number of N's = 4,286 bp (0.01%) GC percentage = 43.11% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 157,721 number of insertions = 1,838 mapped reads with insertion percentage = 0.35% number of deletions = 4,843 mapped reads with deletion percentage = 0.91% homopolymer indels = 42.33% >>>>>>> Coverage mean coverageData = 0.0098X std coverageData = 0.1211X There is a 0.93% of reference with a coverageData >= 1X There is a 0.03% 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 2557467 0.010260624385766325 0.1706799105802621 chr2 243199373 1976131 0.008125559600024134 0.1498200215015477 chr3 198022430 2095138 0.010580306483462506 0.10623903955039722 chr4 191154276 1569157 0.008208851158527052 0.0980018204140673 chr5 180915260 1766076 0.009761896260160696 0.102042803206336 chr6 171115067 1885524 0.01101904135653934 0.11308376689715825 chr7 159138663 1366505 0.008586882497561262 0.1322930886234606 chr8 146364022 3110756 0.02125355642385941 0.16628393797162397 chr9 141213431 1256330 0.008896674991205333 0.10543291775288983 chr10 135534747 1536938 0.011339807938697816 0.12746471545789184 chr11 135006516 1456052 0.010785049811966112 0.1168645789839369 chr12 133851895 1208286 0.009027036935113994 0.09867356966509096 chr13 115169878 756992 0.006572829746333499 0.08436891839522541 chr14 107349540 642701 0.005986993516693225 0.0813798924874591 chr15 102531392 932435 0.009094141626400624 0.09963807227702126 chr16 90354753 950534 0.010520022117707521 0.1079291995000015 chr17 81195210 933133 0.0114924636564152 0.11317338887688684 chr18 78077248 697563 0.00893426725286219 0.14420611705130337 chr19 59128983 555025 0.00938668266964781 0.13313455970316362 chr20 63025520 713682 0.01132369871759884 0.11153019704608444 chr21 48129895 442282 0.009189340637456201 0.10258649060879409 chr22 51304566 222590 0.004338600193986633 0.06740600614295054 chrMT 16571 4363 0.26329129201617285 0.5416824119642268 chrX 155270560 1462680 0.009420201743331125 0.1045700848650562 chrY 59373566 93468 0.0015742359150198255 0.055656606337094724