BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714208.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 150,524 number of mapped reads = 6,743 (4.48%) number of supplementary alignments = 209 (0.14%) number of secondary alignments = 0 number of mapped bases = 560,623 bp number of sequenced bases = 557,103 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 5,800 duplication rate = 40.1% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 11.8457 >>>>>>> ACTG content number of A's = 59,652 bp (10.71%) number of C's = 40,504 bp (7.27%) number of T's = 46,863 bp (8.41%) number of G's = 410,029 bp (73.6%) number of N's = 55 bp (0.01%) GC percentage = 80.87% >>>>>>> Mismatches and indels general error rate = 0.03 number of mismatches = 13,376 number of insertions = 536 mapped reads with insertion percentage = 6.1% number of deletions = 895 mapped reads with deletion percentage = 11.03% homopolymer indels = 44.3% >>>>>>> Coverage mean coverageData = 0.0002X std coverageData = 0.427X There is a 0% 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 3695 1.482443648555644E-5 0.006011998649829334 chr2 243199373 379064 0.001558655334197757 1.5137952882544186 chr3 198022430 2344 1.183704290468509E-5 0.004689058488988806 chr4 191154276 3030 1.585107099566007E-5 0.009755189457532322 chr5 180915260 4954 2.7382985824413042E-5 0.011471805244551428 chr6 171115067 5245 3.0651888766756E-5 0.027595153461878307 chr7 159138663 13844 8.699331601145851E-5 0.06504657769784906 chr8 146364022 7391 5.049738247832517E-5 0.03700362762186296 chr9 141213431 6039 4.276505398413554E-5 0.02725038731481074 chr10 135534747 2388 1.7619098075270692E-5 0.00646905998635237 chr11 135006516 5037 3.730931031506657E-5 0.023123876400497012 chr12 133851895 3284 2.4534579805538053E-5 0.009974839801643359 chr13 115169878 1988 1.726145789613496E-5 0.012901530002696693 chr14 107349540 8746 8.14721702580188E-5 0.05636552713545516 chr15 102531392 1590 1.550744575866092E-5 0.006737264904425064 chr16 90354753 9693 1.0727714567489327E-4 0.06074135559221678 chr17 81195210 3155 3.885697198147526E-5 0.020729888524599307 chr18 78077248 1846 2.364325136049877E-5 0.014200207522470564 chr19 59128983 1072 1.812985689268493E-5 0.011423399520703884 chr20 63025520 417 6.616367465115718E-6 0.0027683060776205978 chr21 48129895 526 1.0928758519003626E-5 0.00407695554583307 chr22 51304566 7230 1.4092312953197967E-4 0.08710598693182725 chrMT 16571 667 0.04025104097519763 0.28840292168712656 chrX 155270560 85861 5.529766879181733E-4 0.17252883479476325 chrY 59373566 1517 2.555009075924461E-5 0.0131704363035705