BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714257.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 = 436,616 number of mapped reads = 69,193 (15.85%) number of supplementary alignments = 1,494 (0.34%) number of secondary alignments = 0 number of mapped bases = 7,165,761 bp number of sequenced bases = 7,149,490 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 67,961 duplication rate = 32.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 10.4108 >>>>>>> ACTG content number of A's = 166,560 bp (2.33%) number of C's = 63,705 bp (0.89%) number of T's = 73,791 bp (1.03%) number of G's = 6,845,248 bp (95.74%) number of N's = 186 bp (0%) GC percentage = 96.64% >>>>>>> Mismatches and indels general error rate = 0.0332 number of mismatches = 177,154 number of insertions = 8,338 mapped reads with insertion percentage = 8.47% number of deletions = 3,613 mapped reads with deletion percentage = 5.03% homopolymer indels = 65.74% >>>>>>> Coverage mean coverageData = 0.0023X std coverageData = 8.7849X 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 22982 9.220438411665984E-5 0.16303069201957893 chr2 243199373 6868765 0.02824334995304449 31.341158292994848 chr3 198022430 7676 3.8763285553055785E-5 0.014229035888805473 chr4 191154276 6072 3.176491851011483E-5 0.00985333075470823 chr5 180915260 5415 2.9931140137100653E-5 0.00859368145329559 chr6 171115067 6810 3.979778122051637E-5 0.016192475867552247 chr7 159138663 14450 9.08013158310875E-5 0.07412880739399112 chr8 146364022 15329 1.0473202219053532E-4 0.05745282932855766 chr9 141213431 3851 2.7270777097682726E-5 0.011344204770496255 chr10 135534747 18683 1.3784657007549512E-4 0.21808683049931657 chr11 135006516 6072 4.497560695514874E-5 0.028733042970726888 chr12 133851895 13216 9.873599473507641E-5 0.0713602850085039 chr13 115169878 2092 1.8164471790097753E-5 0.005176376221849589 chr14 107349540 8381 7.807206253515385E-5 0.08570656088206109 chr15 102531392 3757 3.664243629892394E-5 0.01271365434937133 chr16 90354753 2526 2.7956470646320068E-5 0.00980184005647358 chr17 81195210 11973 1.4745943757027048E-4 0.12683589203346812 chr18 78077248 1112 1.4242305261578891E-5 0.0050026287082178145 chr19 59128983 2833 4.7912205762104856E-5 0.016902519629432757 chr20 63025520 4014 6.36884868224808E-5 0.030978552249691066 chr21 48129895 900 1.869939670551951E-5 0.006436554608223356 chr22 51304566 1173 2.2863462094192552E-5 0.006276279361726541 chrMT 16571 7180 0.433287067768994 2.679965264010567 chrX 155270560 129283 8.326304741864781E-4 0.11257249056883295 chrY 59373566 1216 2.0480494636283088E-5 0.009158345401364603