BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524631.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 = 511,370 number of mapped reads = 474,652 (92.82%) number of supplementary alignments = 1,058 (0.21%) number of secondary alignments = 0 number of mapped bases = 27,670,175 bp number of sequenced bases = 27,661,358 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,119 duplication rate = 1.48% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.2522 >>>>>>> ACTG content number of A's = 7,132,651 bp (25.79%) number of C's = 5,084,331 bp (18.38%) number of T's = 8,944,246 bp (32.33%) number of G's = 6,499,981 bp (23.5%) number of N's = 149 bp (0%) GC percentage = 41.88% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 131,275 number of insertions = 2,001 mapped reads with insertion percentage = 0.42% number of deletions = 5,214 mapped reads with deletion percentage = 1.09% homopolymer indels = 42.43% >>>>>>> Coverage mean coverageData = 0.0089X std coverageData = 0.1129X There is a 0.85% of reference with a coverageData >= 1X There is a 0.03% 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 2819254 0.011310920665670077 0.16841052614842192 chr2 243199373 2470309 0.010157546746635732 0.12714642396397563 chr3 198022430 1744497 0.008809592933487383 0.09733710585003374 chr4 191154276 1243464 0.006505028430543715 0.08749145091899665 chr5 180915260 1701433 0.00940458532906511 0.10045902022178255 chr6 171115067 1780548 0.01040555943562819 0.10886356383374052 chr7 159138663 1668354 0.0104836497212497 0.1310699197725821 chr8 146364022 2687700 0.01836311931903593 0.15891046256629174 chr9 141213431 985726 0.006980398344687199 0.09802240105544374 chr10 135534747 1178866 0.008697887634674228 0.11077208164990388 chr11 135006516 1394110 0.010326242327444403 0.11470149049682495 chr12 133851895 903860 0.0067526873638957445 0.08579130195466386 chr13 115169878 676744 0.005876050333230361 0.07925954610931324 chr14 107349540 496708 0.004627015635092614 0.0718071087843055 chr15 102531392 699482 0.00682212526676708 0.0875351872308617 chr16 90354753 789299 0.008735555948008624 0.09939304775570972 chr17 81195210 590449 0.0072719683833566045 0.08876068854151409 chr18 78077248 737495 0.009445709459431767 0.13811070429982358 chr19 59128983 535587 0.009057943716028399 0.12804770154257938 chr20 63025520 496169 0.007872509421580338 0.09257831413447498 chr21 48129895 243425 0.005057667381156763 0.07614676572119668 chr22 51304566 485849 0.009469897864451285 0.10110177222069636 chrMT 16571 5853 0.3532074105364794 0.5805667211931707 chrX 155270560 1263039 0.008134439651663522 0.09833570409226117 chrY 59373566 71955 0.0012119029535803863 0.045986517309767765