BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714265.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 = 293,344 number of mapped reads = 158,229 (53.94%) number of supplementary alignments = 5,047 (1.72%) number of secondary alignments = 0 number of mapped bases = 20,062,090 bp number of sequenced bases = 19,638,210 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 131,700 duplication rate = 43.15% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.073 >>>>>>> ACTG content number of A's = 4,960,591 bp (25.26%) number of C's = 3,786,746 bp (19.28%) number of T's = 4,716,865 bp (24.02%) number of G's = 6,173,808 bp (31.44%) number of N's = 200 bp (0%) GC percentage = 50.72% >>>>>>> Mismatches and indels general error rate = 0.0452 number of mismatches = 813,236 number of insertions = 23,329 mapped reads with insertion percentage = 13.75% number of deletions = 69,667 mapped reads with deletion percentage = 40.06% homopolymer indels = 32.13% >>>>>>> Coverage mean coverageData = 0.0065X std coverageData = 3.1884X There is a 0.03% of reference with a coverageData >= 1X There is a 0.02% of reference with a coverageData >= 2X There is a 0.02% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0.01% 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 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% of reference with a coverageData >= 14X There is a 0.01% of reference with a coverageData >= 15X There is a 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% 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 1124318 0.004510793174713896 0.690484260166468 chr2 243199373 3767716 0.01549229323054217 10.365757007527513 chr3 198022430 853826 0.00431176407642306 0.8015644459370714 chr4 191154276 982993 0.0051424065449626665 1.3477992239908556 chr5 180915260 974869 0.005388539363677779 1.0359994333345193 chr6 171115067 738489 0.004315745030214084 0.707560232035759 chr7 159138663 716353 0.0045014391003146735 0.688340317801291 chr8 146364022 1416678 0.009679140957195067 3.153284127955157 chr9 141213431 571244 0.004045252607735308 0.8117627424922874 chr10 135534747 770152 0.005682321449273816 0.8567942217980062 chr11 135006516 1269965 0.009406694118378701 2.7942303009730716 chr12 133851895 729316 0.005448678929797744 0.8427334057204954 chr13 115169878 404922 0.003515867230492334 0.7012387112749279 chr14 107349540 621735 0.005791687602946413 1.126664376971567 chr15 102531392 408394 0.003983111825888407 0.5425314746947916 chr16 90354753 387454 0.004288141875613339 0.5431377201079607 chr17 81195210 810903 0.009987079287066318 2.170785998941793 chr18 78077248 488079 0.006251232113099068 1.3480377155400491 chr19 59128983 286186 0.004840029127509262 0.8400005096906693 chr20 63025520 415201 0.006587823472142713 1.4303083880549412 chr21 48129895 106194 0.0022064041486065987 0.25729404996146066 chr22 51304566 153102 0.0029841788350767843 0.48643870603772327 chrMT 16571 287408 17.344034759519644 131.86727914084565 chrX 155270560 1691307 0.010892644426606049 1.4458556538628367 chrY 59373566 85286 0.0014364304815378615 0.5238006281402702