BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524827.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 = 930,611 number of mapped reads = 846,558 (90.97%) number of supplementary alignments = 3,585 (0.39%) number of secondary alignments = 0 number of mapped bases = 48,605,843 bp number of sequenced bases = 48,590,555 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 19,412 duplication rate = 1.71% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.7514 >>>>>>> ACTG content number of A's = 12,216,086 bp (25.14%) number of C's = 9,080,363 bp (18.69%) number of T's = 14,773,222 bp (30.4%) number of G's = 12,514,937 bp (25.76%) number of N's = 5,947 bp (0.01%) GC percentage = 44.44% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 244,559 number of insertions = 3,697 mapped reads with insertion percentage = 0.43% number of deletions = 9,493 mapped reads with deletion percentage = 1.11% homopolymer indels = 42.27% >>>>>>> Coverage mean coverageData = 0.0157X std coverageData = 0.1583X There is a 1.46% 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 3918623 0.015721617800904093 0.18790266442418935 chr2 243199373 4034838 0.01659065954910994 0.21713446016298243 chr3 198022430 3170297 0.016009787376106838 0.13574872061873552 chr4 191154276 3081152 0.016118666369775585 0.150121982019854 chr5 180915260 2925509 0.01617060385066467 0.13435677323814166 chr6 171115067 2734865 0.015982607773516518 0.13795177120471452 chr7 159138663 2697102 0.01694812529623929 0.18766058300552188 chr8 146364022 2477661 0.016928074031745316 0.15084171071919952 chr9 141213431 2040381 0.014448915981653331 0.14116899178440084 chr10 135534747 2403358 0.017732412190949086 0.19714148703778978 chr11 135006516 2243586 0.016618353443029373 0.15285146733033136 chr12 133851895 2201717 0.016448904216111396 0.13601277756552854 chr13 115169878 1487237 0.012913419948226394 0.12026053543821649 chr14 107349540 1467596 0.013671190393549894 0.12537285057878203 chr15 102531392 1385645 0.013514348854251389 0.12364203480244876 chr16 90354753 1512032 0.016734393596316954 0.14750093791983424 chr17 81195210 1372246 0.016900578248396674 0.14160560681643392 chr18 78077248 1255265 0.016077218807712075 0.20545888417014022 chr19 59128983 1080945 0.01828113634222324 0.1762174947357787 chr20 63025520 1080462 0.017143246100944507 0.14265783168852894 chr21 48129895 613408 0.01274484392704368 0.13204610023095462 chr22 51304566 597545 0.011647014029901355 0.11513601239791797 chrMT 16571 10182 0.6144469253515177 0.8633542545382695 chrX 155270560 2654435 0.017095545994037762 0.14481033717358152 chrY 59373566 159756 0.0026906923528898364 0.0853823140276223