BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524726.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 = 977,314 number of mapped reads = 894,710 (91.55%) number of supplementary alignments = 3,613 (0.37%) number of secondary alignments = 0 number of mapped bases = 51,114,431 bp number of sequenced bases = 51,098,060 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 29,480 duplication rate = 2.58% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.62 >>>>>>> ACTG content number of A's = 12,768,997 bp (24.99%) number of C's = 8,956,852 bp (17.53%) number of T's = 16,238,097 bp (31.78%) number of G's = 13,127,801 bp (25.69%) number of N's = 6,313 bp (0.01%) GC percentage = 43.22% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 253,931 number of insertions = 4,178 mapped reads with insertion percentage = 0.46% number of deletions = 10,110 mapped reads with deletion percentage = 1.12% homopolymer indels = 40.75% >>>>>>> Coverage mean coverageData = 0.0165X std coverageData = 0.1692X There is a 1.51% of reference with a coverageData >= 1X There is a 0.1% 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 4092697 0.016420007234405246 0.225087819219522 chr2 243199373 4324627 0.017782229232967635 0.2401689373953489 chr3 198022430 3385264 0.017095356318978613 0.14307468928391856 chr4 191154276 3301906 0.017273513672275895 0.1550063679257344 chr5 180915260 3051996 0.016869754381139544 0.13901773226334593 chr6 171115067 2936724 0.017162275955512438 0.14887297904358196 chr7 159138663 2792461 0.017547344858615532 0.19170372963522966 chr8 146364022 2474361 0.016905527507299574 0.15856186367132416 chr9 141213431 2176727 0.015414447369386556 0.15146852786303197 chr10 135534747 2490249 0.01837350978343583 0.19996708117081224 chr11 135006516 2266362 0.016787056411410543 0.1565304002167995 chr12 133851895 2361186 0.017640288170742747 0.14314746201150924 chr13 115169878 1586839 0.013778246773865646 0.1264715209082544 chr14 107349540 1492230 0.013900665061070593 0.128420846228826 chr15 102531392 1437737 0.014022407888503065 0.12710303808708837 chr16 90354753 1532824 0.016964508773545096 0.1486151958976512 chr17 81195210 1452260 0.017886030469038753 0.14839804133279244 chr18 78077248 1349337 0.017282076847790536 0.21372150449375782 chr19 59128983 1108287 0.018743549166066326 0.18665671613759138 chr20 63025520 1128248 0.01790144690595175 0.1475799146680345 chr21 48129895 684531 0.014222574140251085 0.13860326298359332 chr22 51304566 629332 0.012266588513778676 0.11910119553767053 chrMT 16571 22386 1.3509142477822702 1.4255578393556867 chrX 155270560 2854634 0.01838490181268104 0.15109046639494808 chrY 59373566 181226 0.00305230108631171 0.09290809765696174