BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714057.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 10,574 number of mapped reads = 3,682 (34.82%) number of supplementary alignments = 143 (1.35%) number of secondary alignments = 0 number of mapped bases = 457,310 bp number of sequenced bases = 448,777 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,963 duplication rate = 33.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 35.9607 >>>>>>> ACTG content number of A's = 123,396 bp (27.5%) number of C's = 85,090 bp (18.96%) number of T's = 115,108 bp (25.65%) number of G's = 125,180 bp (27.89%) number of N's = 3 bp (0%) GC percentage = 46.85% >>>>>>> Mismatches and indels general error rate = 0.0419 number of mismatches = 17,476 number of insertions = 462 mapped reads with insertion percentage = 12.19% number of deletions = 1,521 mapped reads with deletion percentage = 38.59% homopolymer indels = 29.5% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.0576X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 30654 1.229846484514877E-4 0.04206325124314109 chr2 243199373 64364 2.6465528757757116E-4 0.15756388108232142 chr3 198022430 19128 9.659511803789096E-5 0.022454884550193326 chr4 191154276 17531 9.171126258248076E-5 0.028677714508849445 chr5 180915260 40239 2.2241904856450473E-4 0.06841776342301005 chr6 171115067 17236 1.0072754142684583E-4 0.02845106475463017 chr7 159138663 20980 1.3183471322741978E-4 0.0318745010295742 chr8 146364022 13258 9.058237003079896E-5 0.028434317844674907 chr9 141213431 17004 1.2041347540093406E-4 0.0325853398895781 chr10 135534747 15885 1.1720241747306319E-4 0.03161723441698229 chr11 135006516 14234 1.0543194818833781E-4 0.026259537139247082 chr12 133851895 12111 9.048060171281102E-5 0.026068735752062942 chr13 115169878 16284 1.4139113701240526E-4 0.033871222530859973 chr14 107349540 20034 1.8662399484897652E-4 0.06559124952020016 chr15 102531392 7100 6.924708483427202E-5 0.019087500067248537 chr16 90354753 7573 8.381407450696036E-5 0.020342508688166692 chr17 81195210 9853 1.2134952295831244E-4 0.028071344026057325 chr18 78077248 14597 1.8695587221516824E-4 0.058452859175098106 chr19 59128983 5120 8.659036127849518E-5 0.01870306408019174 chr20 63025520 3718 5.899197658345381E-5 0.01576939125146106 chr21 48129895 4537 9.426573650326891E-5 0.02784401410270812 chr22 51304566 4100 7.991491439572844E-5 0.02406458502019578 chrMT 16571 11955 0.7214410717518557 3.545115155964771 chrX 155270560 69222 4.4581535611129373E-4 0.056154921603068265 chrY 59373566 593 9.98760963759529E-6 0.008632961022082691