BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524299.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 = 2,955,106 number of mapped reads = 2,689,735 (91.02%) number of supplementary alignments = 10,600 (0.36%) number of secondary alignments = 0 number of mapped bases = 155,121,675 bp number of sequenced bases = 155,079,934 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 120,452 duplication rate = 3.16% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.7817 >>>>>>> ACTG content number of A's = 38,602,967 bp (24.89%) number of C's = 26,601,836 bp (17.15%) number of T's = 49,685,741 bp (32.04%) number of G's = 40,167,491 bp (25.9%) number of N's = 21,899 bp (0.01%) GC percentage = 43.05% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 793,122 number of insertions = 10,632 mapped reads with insertion percentage = 0.39% number of deletions = 25,858 mapped reads with deletion percentage = 0.95% homopolymer indels = 42.15% >>>>>>> Coverage mean coverageData = 0.0501X std coverageData = 0.4353X There is a 4.32% of reference with a coverageData >= 1X There is a 0.47% of reference with a coverageData >= 2X There is a 0.08% of reference with a coverageData >= 3X There is a 0.02% 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% 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 13137864 0.052709453430007706 0.8479623114215805 chr2 243199373 9988368 0.041070697990656414 0.6161311373168608 chr3 198022430 10755104 0.0543125543909344 0.26564167683134093 chr4 191154276 7917701 0.04142047546977186 0.2790008940703292 chr5 180915260 9022880 0.049873515368465876 0.254455779487027 chr6 171115067 9878423 0.05772970886310087 0.3118135004579499 chr7 159138663 6960840 0.04374072188855828 0.5104590411581533 chr8 146364022 15996636 0.10929349837079498 0.5143461778101394 chr9 141213431 6410387 0.04539502336714699 0.3234810903805057 chr10 135534747 7974720 0.05883893375327583 0.4302672442058693 chr11 135006516 7445637 0.05515020475011739 0.34948583504769987 chr12 133851895 6136216 0.04584332556517037 0.24889953303195325 chr13 115169878 3847713 0.0334090221055891 0.2105326951251813 chr14 107349540 3269962 0.030460885067602524 0.22249073346825055 chr15 102531392 4820659 0.04701642010283055 0.25359964741270374 chr16 90354753 4990800 0.05523561112496207 0.29005435669283297 chr17 81195210 4905068 0.060410805021626275 0.31253083461291753 chr18 78077248 3625226 0.046431272782565286 0.6479497378098554 chr19 59128983 2876653 0.04865047315290371 0.5651784586984522 chr20 63025520 3599951 0.05711894166045754 0.27907711736916385 chr21 48129895 2277447 0.04731876103199477 0.2764044825951717 chr22 51304566 1192941 0.023252140949793824 0.1724470478685279 chrMT 16571 127971 7.722587653128961 5.230161261676821 chrX 155270560 7510288 0.04836904046716905 0.29605676155939725 chrY 59373566 452220 0.007616520793108502 0.2167953830451692