BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751190.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,577,191 number of mapped reads = 4,407,633 (96.3%) number of supplementary alignments = 104,398 (2.28%) number of secondary alignments = 0 number of mapped bases = 435,137,177 bp number of sequenced bases = 435,020,141 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 82,125 duplication rate = 1.25% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.5387 >>>>>>> ACTG content number of A's = 126,211,006 bp (29.01%) number of C's = 91,365,257 bp (21%) number of T's = 126,630,879 bp (29.11%) number of G's = 90,810,631 bp (20.88%) number of N's = 2,368 bp (0%) GC percentage = 41.88% >>>>>>> Mismatches and indels general error rate = 0.0034 number of mismatches = 1,358,936 number of insertions = 67,051 mapped reads with insertion percentage = 1.5% number of deletions = 53,951 mapped reads with deletion percentage = 1.2% homopolymer indels = 47.78% >>>>>>> Coverage mean coverageData = 0.1406X std coverageData = 0.8628X There is a 11.44% of reference with a coverageData >= 1X There is a 1.97% of reference with a coverageData >= 2X There is a 0.37% of reference with a coverageData >= 3X There is a 0.08% of reference with a coverageData >= 4X There is a 0.02% of reference with a coverageData >= 5X There is a 0.01% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% 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 54117378 0.21712033367411349 2.35265607875771 chr2 243199373 32293454 0.13278592622029498 0.45868480416165 chr3 198022430 28596041 0.14440809053802642 0.429715647347705 chr4 191154276 17877608 0.09352449955134669 0.35907864242790744 chr5 180915260 34290270 0.18953774269787965 0.49879713114003277 chr6 171115067 24863621 0.14530351672655453 0.6850509829337981 chr7 159138663 23566274 0.14808641442463294 0.5018012457735452 chr8 146364022 20767141 0.1418869249165618 0.45092388908431175 chr9 141213431 20064316 0.14208504005543213 0.5262792190646359 chr10 135534747 22161071 0.16350841013485642 0.8395629154733631 chr11 135006516 19726216 0.14611306612786007 0.5304749622557032 chr12 133851895 23503332 0.1755920751065945 0.47674002505198443 chr13 115169878 11380553 0.09881536038442273 0.35507328473105493 chr14 107349540 9545053 0.08891563950809664 0.3433999214576599 chr15 102531392 11491003 0.11207302247491188 0.3798992753181733 chr16 90354753 12107851 0.13400347627534326 0.5131654759089629 chr17 81195210 13719309 0.16896697477597508 0.6196269851257438 chr18 78077248 8483388 0.108653778370877 0.8531749751466823 chr19 59128983 8528768 0.1442400590586853 1.628871674771193 chr20 63025520 8541099 0.1355181044123079 0.42025526236687466 chr21 48129895 5403012 0.11225896088075821 0.3973916823134665 chr22 51304566 5586429 0.10888755983239387 0.3819715982423779 chrMT 16571 762625 46.02166435338845 17.87513465735903 chrX 155270560 17103746 0.11015446843239311 0.3988392846743404 chrY 59373566 657619 0.01107595592287652 0.36788254031255374