BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6231881.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 5,724 number of mapped reads = 3,828 (66.88%) number of supplementary alignments = 33 (0.58%) number of secondary alignments = 0 number of mapped bases = 241,392 bp number of sequenced bases = 241,277 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 72 duplication rate = 1.82% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 42.439 >>>>>>> ACTG content number of A's = 66,559 bp (27.59%) number of C's = 39,987 bp (16.57%) number of T's = 83,513 bp (34.61%) number of G's = 51,209 bp (21.22%) number of N's = 9 bp (0%) GC percentage = 37.8% >>>>>>> Mismatches and indels general error rate = 0.0123 number of mismatches = 2,944 number of insertions = 19 mapped reads with insertion percentage = 0.47% number of deletions = 71 mapped reads with deletion percentage = 1.83% homopolymer indels = 50% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.009X 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 17497 7.019842088979189E-5 0.008596079798751191 chr2 243199373 10876 4.4720510031907034E-5 0.007053760305956735 chr3 198022430 38657 1.9521525920068752E-4 0.014143380827069155 chr4 191154276 7865 4.1144776693355265E-5 0.006412656237191558 chr5 180915260 15704 8.680307012244296E-5 0.00946474382944067 chr6 171115067 23107 1.3503778717510598E-4 0.01202124192551128 chr7 159138663 15633 9.823508445587481E-5 0.010116079664002913 chr8 146364022 15858 1.0834629838198898E-4 0.01087639769682782 chr9 141213431 11837 8.382347143735924E-5 0.00926813961229566 chr10 135534747 10432 7.696919226181903E-5 0.008929996846006195 chr11 135006516 10062 7.452973603140755E-5 0.008869313577982197 chr12 133851895 6109 4.563999635567356E-5 0.006879414803187294 chr13 115169878 9856 8.557793210478177E-5 0.009323830578014372 chr14 107349540 8394 7.81931622622696E-5 0.008959038930055365 chr15 102531392 781 7.617179331769923E-6 0.0027599132794979176 chr16 90354753 3136 3.470763735030076E-5 0.005982561859053964 chr17 81195210 7561 9.312125678349745E-5 0.009737155982466104 chr18 78077248 2743 3.513187350045944E-5 0.006398858755942629 chr19 59128983 5713 9.66192839812584E-5 0.010099749694890778 chr20 63025520 7037 1.1165318429740841E-4 0.010745445765606468 chr21 48129895 4653 9.667588096753588E-5 0.009955814051133294 chr22 51304566 2455 4.7851491424759345E-5 0.007065075694449097 chrMT 16571 0 0.0 0.0 chrX 155270560 5031 3.240150611938284E-5 0.005794187139253411 chrY 59373566 395 6.652792254384721E-6 0.00257929214993958