BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714247.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 = 10,674 number of mapped reads = 2,505 (23.47%) number of supplementary alignments = 112 (1.05%) number of secondary alignments = 0 number of mapped bases = 283,027 bp number of sequenced bases = 278,538 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,628 duplication rate = 43.88% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 20.3232 >>>>>>> ACTG content number of A's = 51,812 bp (18.6%) number of C's = 42,165 bp (15.14%) number of T's = 48,632 bp (17.46%) number of G's = 135,923 bp (48.8%) number of N's = 6 bp (0%) GC percentage = 63.94% >>>>>>> Mismatches and indels general error rate = 0.0356 number of mismatches = 8,998 number of insertions = 183 mapped reads with insertion percentage = 5.83% number of deletions = 611 mapped reads with deletion percentage = 23.91% homopolymer indels = 30.98% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.1162X 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 5487 2.2013987279092878E-5 0.008131032995737843 chr2 243199373 107193 4.4076182712855924E-4 0.4072212524749678 chr3 198022430 5483 2.7688782528322675E-5 0.011178995977733051 chr4 191154276 3183 1.665147161029241E-5 0.006803066334993461 chr5 180915260 4809 2.6581505617602408E-5 0.011540742659583209 chr6 171115067 3400 1.9869670506572047E-5 0.009053609638599509 chr7 159138663 6537 4.107738419292865E-5 0.027116888233854424 chr8 146364022 7294 4.983465130522308E-5 0.023988890675088016 chr9 141213431 2940 2.0819549381248303E-5 0.007941936290933557 chr10 135534747 3153 2.3263407132047104E-5 0.009438022678640011 chr11 135006516 2019 1.4954833735580586E-5 0.0065516135258648365 chr12 133851895 7436 5.5553938926303584E-5 0.017026440769268802 chr13 115169878 981 8.51785221132213E-6 0.003923592457567256 chr14 107349540 3749 3.492329822745398E-5 0.021668865108179607 chr15 102531392 1868 1.821881048879157E-5 0.00866256942824256 chr16 90354753 2058 2.2776887011134875E-5 0.009533398110325522 chr17 81195210 1177 1.449592900862009E-5 0.005873406121097543 chr18 78077248 902 1.1552661282323885E-5 0.004646920111709393 chr19 59128983 1637 2.768523855720637E-5 0.01303517952913099 chr20 63025520 3616 5.737358454162695E-5 0.022418447096136378 chr21 48129895 435 9.038041741001096E-6 0.0039290341242575605 chr22 51304566 361 7.036410755331211E-6 0.003627213914784426 chrMT 16571 1301 0.07851065113752942 0.5488161663500852 chrX 155270560 105841 6.816552989826275E-4 0.07862907887440493 chrY 59373566 167 2.8126995100816416E-6 0.0019809839457215774