BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751193.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 6,382,545 number of mapped reads = 6,134,601 (96.12%) number of supplementary alignments = 144,869 (2.27%) number of secondary alignments = 0 number of mapped bases = 604,366,860 bp number of sequenced bases = 604,202,880 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 132,702 duplication rate = 1.49% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.5514 >>>>>>> ACTG content number of A's = 175,616,367 bp (29.07%) number of C's = 126,555,889 bp (20.95%) number of T's = 176,502,142 bp (29.21%) number of G's = 125,525,308 bp (20.78%) number of N's = 3,174 bp (0%) GC percentage = 41.72% >>>>>>> Mismatches and indels general error rate = 0.0034 number of mismatches = 1,886,406 number of insertions = 97,151 mapped reads with insertion percentage = 1.56% number of deletions = 75,330 mapped reads with deletion percentage = 1.21% homopolymer indels = 47.66% >>>>>>> Coverage mean coverageData = 0.1952X std coverageData = 1.0954X There is a 14.94% of reference with a coverageData >= 1X There is a 3.28% of reference with a coverageData >= 2X There is a 0.78% of reference with a coverageData >= 3X There is a 0.2% of reference with a coverageData >= 4X There is a 0.06% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% 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 74449418 0.2986930090737868 2.937189236293984 chr2 243199373 54683716 0.22485138561603119 0.6212744959300331 chr3 198022430 38346545 0.19364748225743922 0.5218558514962743 chr4 191154276 24104855 0.12610157357923815 0.4381148325182502 chr5 180915260 47669743 0.2634921067465508 0.613187112954347 chr6 171115067 34272219 0.2002875585467877 0.9656222854576455 chr7 159138663 32342156 0.2032325482086022 0.643323332380553 chr8 146364022 28064632 0.19174542771173642 0.5686302052555025 chr9 141213431 26246988 0.18586750434524885 0.6528795258278617 chr10 135534747 29530767 0.2178833668387635 1.2201232164439388 chr11 135006516 26875516 0.1990682879335987 0.6615121052338557 chr12 133851895 32533624 0.24305688014353477 0.5844873742499651 chr13 115169878 15771719 0.13694309027574034 0.4349921014941835 chr14 107349540 13223677 0.12318335970512775 0.4224667769281421 chr15 102531392 15807373 0.15417105621661706 0.4642604289809995 chr16 90354753 16751888 0.1854012926137931 0.6436651848257228 chr17 81195210 18505687 0.22791599405925547 0.7519327149610376 chr18 78077248 11441888 0.146545738907191 1.0473031829373705 chr19 59128983 11955601 0.20219527536944107 2.161250206936306 chr20 63025520 11454089 0.18173731847035932 0.508187995532771 chr21 48129895 7234633 0.15031474720649193 0.4792338879607419 chr22 51304566 7593839 0.14801487649266928 0.4646761256795009 chrMT 16571 960947 57.98968076760606 23.605309074960044 chrX 155270560 23635811 0.15222338993303045 0.4997435458887721 chrY 59373566 909529 0.01531875312997033 0.471079611546614