BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524650.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 = 770,082 number of mapped reads = 712,594 (92.53%) number of supplementary alignments = 3,028 (0.39%) number of secondary alignments = 0 number of mapped bases = 41,622,646 bp number of sequenced bases = 41,609,319 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 21,010 duplication rate = 2.29% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.9144 >>>>>>> ACTG content number of A's = 10,615,890 bp (25.51%) number of C's = 7,780,923 bp (18.7%) number of T's = 13,426,964 bp (32.27%) number of G's = 9,785,218 bp (23.52%) number of N's = 324 bp (0%) GC percentage = 42.22% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 208,455 number of insertions = 2,965 mapped reads with insertion percentage = 0.41% number of deletions = 7,863 mapped reads with deletion percentage = 1.09% homopolymer indels = 42.45% >>>>>>> Coverage mean coverageData = 0.0134X std coverageData = 0.1534X There is a 1.25% of reference with a coverageData >= 1X There is a 0.07% 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 3934798 0.01578651232327321 0.24528393185668773 chr2 243199373 3477954 0.014300834566707539 0.17777507846210683 chr3 198022430 2607130 0.013165831769663669 0.12109676776295626 chr4 191154276 1924438 0.010067459856351841 0.12006134288963133 chr5 180915260 2551490 0.014103232640519103 0.12519605119197805 chr6 171115067 2727017 0.015936743898770762 0.13763809121991796 chr7 159138663 2582683 0.016229135970559208 0.18667108313304878 chr8 146364022 3706536 0.025324092282733253 0.20534298492397385 chr9 141213431 1518295 0.010751774737347753 0.12763052802194505 chr10 135534747 1833069 0.01352471628548508 0.16761017618346474 chr11 135006516 2619441 0.01940233018086327 0.15724699096050082 chr12 133851895 1422594 0.010628119982910963 0.11080903440498642 chr13 115169878 952156 0.00826740478096191 0.09572139666655892 chr14 107349540 751801 0.007003299688102995 0.09040689481402447 chr15 102531392 963097 0.00939319150177928 0.10263085433786205 chr16 90354753 1252838 0.013865767526363555 0.12809115086858466 chr17 81195210 918040 0.011306578306774501 0.1147418853731043 chr18 78077248 1097542 0.01405712967752142 0.19609267996203392 chr19 59128983 856407 0.014483709283482856 0.1795962302041367 chr20 63025520 771874 0.012247007244049712 0.11907152323221933 chr21 48129895 375252 0.007796651125044009 0.10784076608690557 chr22 51304566 776375 0.015132668698532602 0.1304872985301258 chrMT 16571 5378 0.3245428761088649 0.6009395364562882 chrX 155270560 1873793 0.01206792195506991 0.12195634793086693 chrY 59373566 122648 0.002065700416242474 0.08484280696220625