BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251082.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP224945/SRP224945.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 = 6,091,860 number of mapped reads = 5,398,047 (88.61%) number of supplementary alignments = 54,878 (0.9%) number of secondary alignments = 0 number of mapped bases = 557,385,257 bp number of sequenced bases = 556,067,967 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 3,903,568 duplication rate = 38.58% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.3552 >>>>>>> ACTG content number of A's = 155,005,914 bp (27.88%) number of C's = 113,864,877 bp (20.48%) number of T's = 165,124,757 bp (29.7%) number of G's = 122,072,419 bp (21.95%) number of N's = 0 bp (0%) GC percentage = 42.43% >>>>>>> Mismatches and indels general error rate = 0.0104 number of mismatches = 4,181,654 number of insertions = 1,448,996 mapped reads with insertion percentage = 19.07% number of deletions = 1,126,899 mapped reads with deletion percentage = 17.05% homopolymer indels = 40.55% >>>>>>> Coverage mean coverageData = 0.1801X std coverageData = 2.173X There is a 2.4% of reference with a coverageData >= 1X There is a 1.52% of reference with a coverageData >= 2X There is a 1.22% of reference with a coverageData >= 3X There is a 1.05% of reference with a coverageData >= 4X There is a 0.92% of reference with a coverageData >= 5X There is a 0.82% of reference with a coverageData >= 6X There is a 0.74% of reference with a coverageData >= 7X There is a 0.68% of reference with a coverageData >= 8X There is a 0.62% of reference with a coverageData >= 9X There is a 0.56% of reference with a coverageData >= 10X There is a 0.52% of reference with a coverageData >= 11X There is a 0.48% of reference with a coverageData >= 12X There is a 0.44% of reference with a coverageData >= 13X There is a 0.41% of reference with a coverageData >= 14X There is a 0.38% of reference with a coverageData >= 15X There is a 0.35% of reference with a coverageData >= 16X There is a 0.33% of reference with a coverageData >= 17X There is a 0.3% of reference with a coverageData >= 18X There is a 0.28% of reference with a coverageData >= 19X There is a 0.26% of reference with a coverageData >= 20X There is a 0.24% of reference with a coverageData >= 21X There is a 0.23% of reference with a coverageData >= 22X There is a 0.21% of reference with a coverageData >= 23X There is a 0.2% of reference with a coverageData >= 24X There is a 0.18% of reference with a coverageData >= 25X There is a 0.17% of reference with a coverageData >= 26X There is a 0.16% of reference with a coverageData >= 27X There is a 0.15% of reference with a coverageData >= 28X There is a 0.14% of reference with a coverageData >= 29X There is a 0.13% of reference with a coverageData >= 30X There is a 0.12% of reference with a coverageData >= 31X There is a 0.11% of reference with a coverageData >= 32X There is a 0.1% of reference with a coverageData >= 33X There is a 0.1% of reference with a coverageData >= 34X There is a 0.09% of reference with a coverageData >= 35X There is a 0.08% of reference with a coverageData >= 36X There is a 0.08% of reference with a coverageData >= 37X There is a 0.07% of reference with a coverageData >= 38X There is a 0.07% of reference with a coverageData >= 39X There is a 0.06% of reference with a coverageData >= 40X There is a 0.06% of reference with a coverageData >= 41X There is a 0.05% of reference with a coverageData >= 42X There is a 0.05% of reference with a coverageData >= 43X There is a 0.05% of reference with a coverageData >= 44X There is a 0.04% of reference with a coverageData >= 45X There is a 0.04% of reference with a coverageData >= 46X There is a 0.04% of reference with a coverageData >= 47X There is a 0.04% of reference with a coverageData >= 48X There is a 0.03% of reference with a coverageData >= 49X There is a 0.03% of reference with a coverageData >= 50X There is a 0.03% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 46901834 0.18817138273047673 2.200475324028296 chr2 243199373 46972434 0.19314372985657327 2.296705264436104 chr3 198022430 37761003 0.1906905344005727 2.196323211913652 chr4 191154276 32723917 0.17119113254887378 2.0961685871476425 chr5 180915260 33332062 0.18424129617368928 2.245359053667616 chr6 171115067 30643175 0.1790793501544782 2.1612627663356583 chr7 159138663 30325029 0.19055726891459432 2.2764437692773893 chr8 146364022 26424223 0.18053769388764132 2.2041806581221093 chr9 141213431 24474668 0.17331685680804682 2.190298678385045 chr10 135534747 32688678 0.24118300822150057 2.4810161152865824 chr11 135006516 25153779 0.18631529607059855 2.12541597481642 chr12 133851895 27623534 0.2063738731528605 2.2899779770197655 chr13 115169878 16422951 0.1425976243545209 1.874187751247936 chr14 107349540 16889717 0.15733385536631084 1.965378019831791 chr15 102531392 17117753 0.16695133720607247 2.032738888038035 chr16 90354753 17389328 0.19245615114458892 2.142605892584 chr17 81195210 17391376 0.21419214261530944 2.270971062105996 chr18 78077248 13109104 0.16789915546203676 2.082012206239069 chr19 59128983 12052814 0.2038393591176767 2.356375070237784 chr20 63025520 12218891 0.19387211719950903 2.197063249496453 chr21 48129895 6755749 0.1403649228821297 1.87005462061613 chr22 51304566 7458726 0.1453813292173644 1.8732858670352368 chrMT 16571 653641 39.444873574316574 116.90587954356062 chrX 155270560 24188378 0.1557821263734735 1.9590985556283278 chrY 59373566 712493 0.012000171928362868 0.49959189174195284