BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714048.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 = 470,956 number of mapped reads = 65,071 (13.82%) number of supplementary alignments = 1,276 (0.27%) number of secondary alignments = 0 number of mapped bases = 6,834,248 bp number of sequenced bases = 6,820,686 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 64,002 duplication rate = 27.97% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 9.9809 >>>>>>> ACTG content number of A's = 126,500 bp (1.85%) number of C's = 37,578 bp (0.55%) number of T's = 42,978 bp (0.63%) number of G's = 6,613,472 bp (96.96%) number of N's = 158 bp (0%) GC percentage = 97.51% >>>>>>> Mismatches and indels general error rate = 0.034 number of mismatches = 169,853 number of insertions = 8,373 mapped reads with insertion percentage = 9.11% number of deletions = 3,235 mapped reads with deletion percentage = 4.8% homopolymer indels = 67.63% >>>>>>> Coverage mean coverageData = 0.0022X std coverageData = 8.4527X 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 12728 5.106506835944854E-5 0.054278510434509604 chr2 243199373 6660991 0.02738901386888033 30.156923239654287 chr3 198022430 6275 3.1688329448335724E-5 0.011095553933240085 chr4 191154276 8179 4.2787428935149744E-5 0.015576902139522722 chr5 180915260 4961 2.742167797232804E-5 0.007552284925164144 chr6 171115067 4632 2.70695040548358E-5 0.010229482028076407 chr7 159138663 13329 8.375714454758238E-5 0.08198273764253652 chr8 146364022 5695 3.890983536924122E-5 0.023179790704263244 chr9 141213431 3307 2.3418452314213653E-5 0.01099874425219032 chr10 135534747 8820 6.507556324283396E-5 0.05640973322392406 chr11 135006516 5599 4.147207235538172E-5 0.03529753421350416 chr12 133851895 9474 7.077972261804736E-5 0.05698155059791729 chr13 115169878 1722 1.4951826205807043E-5 0.004396333347695363 chr14 107349540 9460 8.81233398857601E-5 0.09471622083704832 chr15 102531392 4970 4.8472959383990416E-5 0.02005483648191689 chr16 90354753 3894 4.309679204147678E-5 0.011981888840837299 chr17 81195210 8696 1.0709991389886176E-4 0.10413276734397053 chr18 78077248 2028 2.597427614251978E-5 0.010522499852617 chr19 59128983 4706 7.958871878449186E-5 0.02519542381022015 chr20 63025520 1835 2.9115190164238233E-5 0.012002162747477564 chr21 48129895 809 1.6808679927516984E-5 0.0049367260920377375 chr22 51304566 1021 1.9900762828789938E-5 0.005568706226197301 chrMT 16571 4978 0.30040432080140006 1.428221313953363 chrX 155270560 43056 2.772966105100671E-4 0.05142274358700152 chrY 59373566 3083 5.1925464608273656E-5 0.013106262720011906