BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524969.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 = 535,555 number of mapped reads = 493,515 (92.15%) number of supplementary alignments = 1,305 (0.24%) number of secondary alignments = 0 number of mapped bases = 28,902,669 bp number of sequenced bases = 28,892,897 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,745 duplication rate = 1.16% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.4827 >>>>>>> ACTG content number of A's = 7,468,943 bp (25.85%) number of C's = 5,375,473 bp (18.6%) number of T's = 9,136,852 bp (31.62%) number of G's = 6,911,267 bp (23.92%) number of N's = 362 bp (0%) GC percentage = 42.53% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 141,884 number of insertions = 2,189 mapped reads with insertion percentage = 0.44% number of deletions = 5,670 mapped reads with deletion percentage = 1.14% homopolymer indels = 42.94% >>>>>>> Coverage mean coverageData = 0.0093X std coverageData = 0.117X There is a 0.89% of reference with a coverageData >= 1X There is a 0.03% 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 3258069 0.013071457904211199 0.19099042237691596 chr2 243199373 2468367 0.010149561528680422 0.12801909947562345 chr3 198022430 1650669 0.008335767821857352 0.09393071115971813 chr4 191154276 1868923 0.00977703998627789 0.10344848205866933 chr5 180915260 1279966 0.007074947685452294 0.08663143130188326 chr6 171115067 1750020 0.010227153170562123 0.1177570650972116 chr7 159138663 1864077 0.01171353940556859 0.14636834259036954 chr8 146364022 1780297 0.012163487827630208 0.12485991010267365 chr9 141213431 833943 0.005905550159743657 0.08978378807491952 chr10 135534747 1505004 0.011104193081940826 0.12187259554481199 chr11 135006516 1261402 0.009343267550138099 0.11046082888669534 chr12 133851895 1628842 0.01216898722278082 0.11339233157450161 chr13 115169878 562024 0.00487995654558217 0.07194364211230152 chr14 107349540 698067 0.006502747939115529 0.08323138791447955 chr15 102531392 839042 0.008183269373734826 0.0950105102600144 chr16 90354753 809764 0.008962052057183976 0.0988564982076756 chr17 81195210 815105 0.010038831108386813 0.11417951399400643 chr18 78077248 562947 0.007210128615188896 0.12050635140485547 chr19 59128983 736117 0.012449343158836336 0.13970497368803944 chr20 63025520 575088 0.009124684730883617 0.09848146813552063 chr21 48129895 434196 0.009021336946610833 0.09906658959943636 chr22 51304566 439284 0.0085622788427837 0.09521752981881493 chrMT 16571 10030 0.6052742743346811 0.8592140335138571 chrX 155270560 1200111 0.007729159990148809 0.09492919536098718 chrY 59373566 71315 0.0012011237458770794 0.04119292097390731