BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524782.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 847,318 number of mapped reads = 775,771 (91.56%) number of supplementary alignments = 3,215 (0.38%) number of secondary alignments = 0 number of mapped bases = 44,289,753 bp number of sequenced bases = 44,275,041 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,456 duplication rate = 2.37% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6503 >>>>>>> ACTG content number of A's = 10,716,768 bp (24.2%) number of C's = 8,091,060 bp (18.27%) number of T's = 14,458,777 bp (32.66%) number of G's = 11,003,431 bp (24.85%) number of N's = 5,005 bp (0.01%) GC percentage = 43.13% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 223,495 number of insertions = 2,870 mapped reads with insertion percentage = 0.37% number of deletions = 9,017 mapped reads with deletion percentage = 1.15% homopolymer indels = 42.79% >>>>>>> Coverage mean coverageData = 0.0143X std coverageData = 0.1555X There is a 1.32% of reference with a coverageData >= 1X There is a 0.08% of reference with a coverageData >= 2X There is a 0.01% 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 3558291 0.014275956407747526 0.2029709217515865 chr2 243199373 3695320 0.015194611542028934 0.2234710214702199 chr3 198022430 2911760 0.014704192853304548 0.12990361158822816 chr4 191154276 2891776 0.015127969201170263 0.1424520202056783 chr5 180915260 2633958 0.014559070362555375 0.12881262300004623 chr6 171115067 2498336 0.014600327392560937 0.1360728528068431 chr7 159138663 2416615 0.015185593208106819 0.17886991504752559 chr8 146364022 2215567 0.01513737440202347 0.14654202363984856 chr9 141213431 1936372 0.013712378392675693 0.14305621239750332 chr10 135534747 2118356 0.015629615629119815 0.1781041739029379 chr11 135006516 1983178 0.01468949839428491 0.13937299174600953 chr12 133851895 1994721 0.014902448710195698 0.13131469505375284 chr13 115169878 1379559 0.011978470620590568 0.11703698012668418 chr14 107349540 1365399 0.012719188177238579 0.1222358575031567 chr15 102531392 1304681 0.012724698012487727 0.12044775283270234 chr16 90354753 1324105 0.0146545140796301 0.13705632503599322 chr17 81195210 1217164 0.01499058873054211 0.13436698274345074 chr18 78077248 1163402 0.01490065326072968 0.19980389194770223 chr19 59128983 952771 0.016113434590951783 0.16541320843238042 chr20 63025520 941002 0.0149304916484624 0.13377589331326437 chr21 48129895 588316 0.012223504746893796 0.12523942301495458 chr22 51304566 540561 0.010536313668455942 0.11007399161737455 chrMT 16571 28584 1.7249411622714381 1.6687405563754731 chrX 155270560 2470639 0.015911831579663267 0.13953645795884248 chrY 59373566 159320 0.002683349017641959 0.08796237584263031