BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524712.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 = 264,971 number of mapped reads = 246,508 (93.03%) number of supplementary alignments = 899 (0.34%) number of secondary alignments = 0 number of mapped bases = 14,895,738 bp number of sequenced bases = 14,891,201 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 2,818 duplication rate = 0.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1277 >>>>>>> ACTG content number of A's = 4,023,663 bp (27.02%) number of C's = 2,952,130 bp (19.82%) number of T's = 4,588,526 bp (30.81%) number of G's = 3,324,688 bp (22.33%) number of N's = 2,194 bp (0.01%) GC percentage = 42.15% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 72,148 number of insertions = 1,238 mapped reads with insertion percentage = 0.5% number of deletions = 2,832 mapped reads with deletion percentage = 1.14% homopolymer indels = 43.54% >>>>>>> Coverage mean coverageData = 0.0048X std coverageData = 0.0786X There is a 0.47% of reference with a coverageData >= 1X There is a 0.01% 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 1196644 0.004800966975324005 0.10904730413162164 chr2 243199373 1270826 0.005225449327124704 0.08578824238780786 chr3 198022430 1002066 0.005060366141350755 0.0722407593439642 chr4 191154276 966837 0.005057888425158745 0.07368512095224199 chr5 180915260 903948 0.004996527103352144 0.07173893700276521 chr6 171115067 866721 0.005065135497390186 0.07441974466309673 chr7 159138663 823604 0.005175385946280069 0.0856104942383379 chr8 146364022 744451 0.005086297778835293 0.08217299803085475 chr9 141213431 627493 0.004443578741458382 0.072124270465795 chr10 135534747 715708 0.005280623720793901 0.0847154190223983 chr11 135006516 676679 0.005012195115086149 0.07532612037923218 chr12 133851895 675894 0.005049566164154792 0.07298262966073814 chr13 115169878 466298 0.004048784353144839 0.06483993166464372 chr14 107349540 440226 0.0041008652668656055 0.06521574556113424 chr15 102531392 421820 0.004114057087998961 0.06516787537221333 chr16 90354753 421415 0.0046640047812426646 0.07169901226005346 chr17 81195210 394484 0.004858463941407381 0.07131852902068937 chr18 78077248 394805 0.005056594720141775 0.0924309593242661 chr19 59128983 300455 0.005081349023033256 0.08890242737366055 chr20 63025520 312075 0.00495156565150117 0.07164237751474173 chr21 48129895 200733 0.00417065110987672 0.06741061014971177 chr22 51304566 172491 0.003362098414398438 0.05870212197140258 chrMT 16571 4813 0.29044716673707077 0.6054197951225967 chrX 155270560 848288 0.005463289370502689 0.07594935406441117 chrY 59373566 46964 7.909917352782887E-4 0.038643319072119486