BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9867863.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 = 1,054,736 number of mapped reads = 973,298 (92.28%) number of supplementary alignments = 4,244 (0.4%) number of secondary alignments = 0 number of mapped bases = 57,487,957 bp number of sequenced bases = 57,470,699 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 26,673 duplication rate = 1.96% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7456 >>>>>>> ACTG content number of A's = 14,959,457 bp (26.03%) number of C's = 10,733,632 bp (18.68%) number of T's = 18,451,510 bp (32.11%) number of G's = 13,317,875 bp (23.17%) number of N's = 8,225 bp (0.01%) GC percentage = 41.85% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 288,514 number of insertions = 4,284 mapped reads with insertion percentage = 0.44% number of deletions = 10,711 mapped reads with deletion percentage = 1.09% homopolymer indels = 42.89% >>>>>>> Coverage mean coverageData = 0.0186X std coverageData = 0.1962X There is a 1.73% of reference with a coverageData >= 1X There is a 0.09% 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 4613633 0.018510016069328068 0.3261351183153934 chr2 243199373 4847873 0.01993373971404112 0.2475537903096574 chr3 198022430 3803229 0.019206051556886764 0.14564578057604724 chr4 191154276 3763573 0.019688667597475035 0.16271968595165032 chr5 180915260 3451228 0.01907648918062523 0.14560562974761804 chr6 171115067 3312384 0.01935764078565916 0.1610874942963088 chr7 159138663 3220944 0.02023985836804473 0.23554566932243814 chr8 146364022 2928457 0.020008038587515722 0.20005380268388387 chr9 141213431 2431721 0.017220182122761395 0.1708038354293464 chr10 135534747 2811367 0.020742776758199136 0.21100315454871593 chr11 135006516 2609837 0.019331192873683224 0.16934284465469998 chr12 133851895 2601717 0.019437281780732354 0.14751942524292702 chr13 115169878 1824193 0.015839150233362236 0.1337574075138415 chr14 107349540 1732591 0.01613971517716797 0.1378933223161513 chr15 102531392 1637368 0.015969431098721454 0.134179920018387 chr16 90354753 1652266 0.018286431484130117 0.15021840362833658 chr17 81195210 1514165 0.018648452291705385 0.1484206996938909 chr18 78077248 1552556 0.01988487094217255 0.29314811763673115 chr19 59128983 1163205 0.01967233226385781 0.26150727398487195 chr20 63025520 1226696 0.01946348082491029 0.14868205221574485 chr21 48129895 740956 0.015394922428149906 0.14370345807719442 chr22 51304566 671528 0.01308904942300847 0.12014429364564327 chrMT 16571 18876 1.1390984249592662 1.2697046157935208 chrX 155270560 3163849 0.020376361107991108 0.16083632682232757 chrY 59373566 193745 0.0032631524944956142 0.12338936638596064