BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525088.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 = 517,270 number of mapped reads = 378,300 (73.13%) number of supplementary alignments = 1,386 (0.27%) number of secondary alignments = 0 number of mapped bases = 21,914,065 bp number of sequenced bases = 21,907,747 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,621 duplication rate = 2.15% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7722 >>>>>>> ACTG content number of A's = 5,394,286 bp (24.62%) number of C's = 4,036,439 bp (18.42%) number of T's = 7,106,037 bp (32.44%) number of G's = 5,368,482 bp (24.5%) number of N's = 2,503 bp (0.01%) GC percentage = 42.93% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 102,847 number of insertions = 1,447 mapped reads with insertion percentage = 0.38% number of deletions = 3,895 mapped reads with deletion percentage = 1.02% homopolymer indels = 43.35% >>>>>>> Coverage mean coverageData = 0.0071X std coverageData = 0.0981X There is a 0.67% 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 1718533 0.006894799271132007 0.12680769010106346 chr2 243199373 1873753 0.007704596343675606 0.11517442309072018 chr3 198022430 1479010 0.007468901376475382 0.09011818241349141 chr4 191154276 1458433 0.007629612219608417 0.0970793547375446 chr5 180915260 1379301 0.0076240169016146015 0.09063939465906878 chr6 171115067 1322349 0.007727834977851483 0.09378737713021314 chr7 159138663 1259496 0.007914456337992483 0.10772883749682308 chr8 146364022 1156448 0.007901176697644998 0.10374108610937666 chr9 141213431 958545 0.006787916653621991 0.09196037552929491 chr10 135534747 1096590 0.008090840351072482 0.11316204434570654 chr11 135006516 1003618 0.007433848600314965 0.09331273044125302 chr12 133851895 1012530 0.007564554838764143 0.09087752920434804 chr13 115169878 691541 0.006004530108124279 0.08097586102424591 chr14 107349540 682373 0.00635655262239596 0.08319129405354109 chr15 102531392 644486 0.006285743199507132 0.08295343751853161 chr16 90354753 667012 0.007382146238615693 0.09134864734183067 chr17 81195210 612613 0.007544940151026151 0.09185137582815857 chr18 78077248 590279 0.007560192183003171 0.11338949137503794 chr19 59128983 465109 0.007866007098413988 0.10706356860424882 chr20 63025520 470795 0.007469910601292936 0.09077538578700438 chr21 48129895 294664 0.006122265589816891 0.08835573271952393 chr22 51304566 280033 0.005458247127555859 0.07673814036439708 chrMT 16571 10076 0.6080502081950395 0.9088406473903293 chrX 155270560 715468 0.004607879304357503 0.07339932373653844 chrY 59373566 71010 0.001195986779705972 0.05173097118906005