BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714237.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 = 305,844 number of mapped reads = 28,252 (9.24%) number of supplementary alignments = 815 (0.27%) number of secondary alignments = 0 number of mapped bases = 2,876,534 bp number of sequenced bases = 2,856,869 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,507 duplication rate = 35.64% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 35.03 >>>>>>> ACTG content number of A's = 444,092 bp (15.54%) number of C's = 311,679 bp (10.91%) number of T's = 415,941 bp (14.56%) number of G's = 1,685,015 bp (58.98%) number of N's = 142 bp (0%) GC percentage = 69.89% >>>>>>> Mismatches and indels general error rate = 0.0317 number of mismatches = 77,497 number of insertions = 2,369 mapped reads with insertion percentage = 6.54% number of deletions = 4,888 mapped reads with deletion percentage = 16.78% homopolymer indels = 52.98% >>>>>>> Coverage mean coverageData = 0.0009X std coverageData = 1.7633X There is a 0.01% 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 29119 1.1682618836885465E-4 0.027415175195781842 chr2 243199373 1455351 0.005984188947723973 5.8148588243342525 chr3 198022430 46087 2.3273626124070893E-4 0.13670323258638636 chr4 191154276 31765 1.6617467662611953E-4 0.03615319645809974 chr5 180915260 39965 2.2090452734611774E-4 0.04217873087325592 chr6 171115067 37185 2.1730991111378872E-4 0.07673005246307953 chr7 159138663 37637 2.3650443764253567E-4 0.07863708552791668 chr8 146364022 29169 1.9929077925994682E-4 0.048325958437741415 chr9 141213431 18536 1.312623018132036E-4 0.033670563977076295 chr10 135534747 22351 1.6490974082092764E-4 0.03880836291183704 chr11 135006516 20675 1.5314075655429847E-4 0.04701603421233707 chr12 133851895 24270 1.8131980873337654E-4 0.0417026849863728 chr13 115169878 16132 1.4007134747507505E-4 0.034837960488514085 chr14 107349540 30009 2.795447470012447E-4 0.09976128281875409 chr15 102531392 10626 1.0363655259844711E-4 0.016459094660797525 chr16 90354753 11661 1.29057958910031E-4 0.026492671534925606 chr17 81195210 13740 1.692218050793883E-4 0.05461813158961481 chr18 78077248 25246 3.233464376203424E-4 0.11864483704909455 chr19 59128983 8710 1.4730508725306504E-4 0.033606410901349526 chr20 63025520 8076 1.2813856989993895E-4 0.028975233761565685 chr21 48129895 2025 4.20736425874189E-5 0.009638088355769398 chr22 51304566 2202 4.292015646326684E-5 0.009549797513159168 chrMT 16571 560111 33.800675879548606 279.2736278076382 chrX 155270560 391680 0.002522564483569841 0.7170155937528079 chrY 59373566 4206 7.083960562516996E-5 0.02205043564839817