BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714058.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 = 513,986 number of mapped reads = 95,685 (18.62%) number of supplementary alignments = 3,083 (0.6%) number of secondary alignments = 0 number of mapped bases = 9,635,097 bp number of sequenced bases = 9,604,157 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 91,487 duplication rate = 23.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 23.8751 >>>>>>> ACTG content number of A's = 446,285 bp (4.65%) number of C's = 205,384 bp (2.14%) number of T's = 264,047 bp (2.75%) number of G's = 8,688,145 bp (90.46%) number of N's = 296 bp (0%) GC percentage = 92.6% >>>>>>> Mismatches and indels general error rate = 0.0327 number of mismatches = 239,505 number of insertions = 10,476 mapped reads with insertion percentage = 7.07% number of deletions = 5,938 mapped reads with deletion percentage = 5.97% homopolymer indels = 62.93% >>>>>>> Coverage mean coverageData = 0.0031X std coverageData = 11X There is a 0.01% 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 93681 3.7585061824178963E-4 0.6862307515531566 chr2 243199373 8601573 0.035368401217054125 39.231596308964725 chr3 198022430 28039 1.415950708210176E-4 0.03020733254435984 chr4 191154276 25074 1.3117153602151176E-4 0.026016035956884564 chr5 180915260 34149 1.88756879878458E-4 0.038004509342428466 chr6 171115067 33253 1.9433122157501187E-4 0.05837870233585328 chr7 159138663 32034 2.0129614888118042E-4 0.10023279596668933 chr8 146364022 33822 2.310813787284419E-4 0.059864333207355507 chr9 141213431 15615 1.1057730054020144E-4 0.023089333278013383 chr10 135534747 78802 5.814154801203857E-4 0.9392947534953074 chr11 135006516 24181 1.7910987348195844E-4 0.05304319431476177 chr12 133851895 34355 2.566642780813824E-4 0.1373224864730542 chr13 115169878 9485 8.235660369458757E-5 0.012219677757465557 chr14 107349540 23317 2.172063336275125E-4 0.09558094585364536 chr15 102531392 15157 1.4782789645536071E-4 0.03954123469256254 chr16 90354753 11329 1.253835534252415E-4 0.022455563786735584 chr17 81195210 21565 2.6559448519192203E-4 0.16921109592168504 chr18 78077248 10402 1.3322703177243131E-4 0.01652718822628129 chr19 59128983 11767 1.9900562132110406E-4 0.04006788449780895 chr20 63025520 12235 1.9412771207599715E-4 0.04591915228756447 chr21 48129895 3058 6.353639458386518E-5 0.01026940000131085 chr22 51304566 4096 7.983694862558627E-5 0.013308357522380104 chrMT 16571 23255 1.4033552591877376 6.093857791334948 chrX 155270560 449232 0.002893220710996341 0.36011032522634395 chrY 59373566 5621 9.467176015670004E-5 0.024791290642651818