BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524921.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 = 1,302,342 number of mapped reads = 1,202,694 (92.35%) number of supplementary alignments = 4,793 (0.37%) number of secondary alignments = 0 number of mapped bases = 69,787,787 bp number of sequenced bases = 69,766,013 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 50,930 duplication rate = 3.37% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6613 >>>>>>> ACTG content number of A's = 17,664,685 bp (25.32%) number of C's = 12,997,989 bp (18.63%) number of T's = 22,559,147 bp (32.34%) number of G's = 16,543,630 bp (23.71%) number of N's = 562 bp (0%) GC percentage = 42.34% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 351,590 number of insertions = 4,563 mapped reads with insertion percentage = 0.38% number of deletions = 13,019 mapped reads with deletion percentage = 1.08% homopolymer indels = 41.93% >>>>>>> Coverage mean coverageData = 0.0225X std coverageData = 0.2164X There is a 2.01% of reference with a coverageData >= 1X There is a 0.18% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% 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 6603813 0.026494670197832727 0.3665477964282467 chr2 243199373 6086863 0.025028284098413362 0.27630882278078606 chr3 198022430 4418355 0.02231239663102811 0.16447085486077864 chr4 191154276 3022763 0.015813211523450305 0.16106010120464162 chr5 180915260 4299891 0.023767431227194432 0.16860588965884657 chr6 171115067 4585258 0.026796342837536336 0.18648551063138816 chr7 159138663 4142932 0.026033472456658758 0.2585714111779378 chr8 146364022 6225163 0.04253205750249197 0.272604431818578 chr9 141213431 2558548 0.018118304908263293 0.17250866751932195 chr10 135534747 3099624 0.022869589301701358 0.23342484129162325 chr11 135006516 4405279 0.032630121349105846 0.21742995389438952 chr12 133851895 2331380 0.017417609216515015 0.14626781038103615 chr13 115169878 1500234 0.013026270636494032 0.12585984709181244 chr14 107349540 1304973 0.012156298014877382 0.12294953356663806 chr15 102531392 1769455 0.017257690210623493 0.1447131814100049 chr16 90354753 2111086 0.023364415594163596 0.17372606506013608 chr17 81195210 1553307 0.019130525064224847 0.15545915072808705 chr18 78077248 1860478 0.023828683101125694 0.2552141928657069 chr19 59128983 1409226 0.02383308368418919 0.27324251091564655 chr20 63025520 1178047 0.018691587153902102 0.15365740514154722 chr21 48129895 612515 0.012726289970090315 0.1438472252418409 chr22 51304566 1286492 0.02507558489043646 0.17479350308144284 chrMT 16571 1423 0.0858729105063062 0.32597253312367697 chrX 155270560 3218747 0.020729924590984924 0.16819461251571996 chrY 59373566 201935 0.0034010926680738698 0.11338940844067268