BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524453.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 = 1,133,329 number of mapped reads = 1,036,837 (91.49%) number of supplementary alignments = 2,353 (0.21%) number of secondary alignments = 0 number of mapped bases = 60,093,865 bp number of sequenced bases = 60,074,759 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 36,794 duplication rate = 2.77% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2076 >>>>>>> ACTG content number of A's = 15,781,206 bp (26.27%) number of C's = 11,118,579 bp (18.51%) number of T's = 18,312,388 bp (30.48%) number of G's = 14,861,351 bp (24.74%) number of N's = 1,235 bp (0%) GC percentage = 43.25% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 284,986 number of insertions = 4,347 mapped reads with insertion percentage = 0.42% number of deletions = 11,074 mapped reads with deletion percentage = 1.06% homopolymer indels = 42.38% >>>>>>> Coverage mean coverageData = 0.0194X std coverageData = 0.1959X There is a 1.76% of reference with a coverageData >= 1X There is a 0.13% 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 5948158 0.023864165217064796 0.31971929077474526 chr2 243199373 4742655 0.019501098796007175 0.22367225914678393 chr3 198022430 3506104 0.01770559022025939 0.14393745299784455 chr4 191154276 3373021 0.017645543016782946 0.15535536077828796 chr5 180915260 3252132 0.0179759960547275 0.1451901249027324 chr6 171115067 2593109 0.015154182769890159 0.15759060604726316 chr7 159138663 2995096 0.0188206683626593 0.254370188248952 chr8 146364022 5340119 0.03648518896262635 0.22845292417287222 chr9 141213431 2508240 0.017762049843544982 0.17481602838264393 chr10 135534747 3136028 0.02313818463098618 0.1999768783636773 chr11 135006516 2058107 0.01524450123577739 0.18747172638736692 chr12 133851895 2790890 0.020850582653312456 0.15610366191042427 chr13 115169878 1358697 0.011797329506591993 0.11807533265231654 chr14 107349540 1447623 0.013485134635881997 0.1257961124744105 chr15 102531392 1606164 0.015665095037430098 0.1446184234506103 chr16 90354753 1879564 0.020802049007870124 0.16497640386494664 chr17 81195210 2098666 0.025847165122179005 0.1770450800240124 chr18 78077248 1415079 0.018124089107239026 0.27479358387502284 chr19 59128983 1213969 0.020530862166190142 0.23078443032006637 chr20 63025520 1708939 0.027115032133015325 0.178674263886217 chr21 48129895 833817 0.017324305403117957 0.14931368406619766 chr22 51304566 495640 0.009660738578316792 0.10529921394329152 chrMT 16571 4834 0.2917144408907127 0.5918927978612708 chrX 155270560 3600069 0.02318577971252245 0.17861131646958744 chrY 59373566 187145 0.0031519919150552623 0.08570201296188845