BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251066.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP224945/SRP224945.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 = 4,361,170 number of mapped reads = 4,208,747 (96.5%) number of supplementary alignments = 35,435 (0.81%) number of secondary alignments = 0 number of mapped bases = 326,390,321 bp number of sequenced bases = 326,173,316 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 907,025 duplication rate = 19.12% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 48.1455 >>>>>>> ACTG content number of A's = 94,678,721 bp (29.03%) number of C's = 65,535,996 bp (20.09%) number of T's = 96,098,176 bp (29.46%) number of G's = 69,857,446 bp (21.42%) number of N's = 2,977 bp (0%) GC percentage = 41.51% >>>>>>> Mismatches and indels general error rate = 0.0061 number of mismatches = 1,902,608 number of insertions = 39,584 mapped reads with insertion percentage = 0.92% number of deletions = 121,810 mapped reads with deletion percentage = 2.85% homopolymer indels = 44.82% >>>>>>> Coverage mean coverageData = 0.1054X std coverageData = 0.9879X There is a 6.9% of reference with a coverageData >= 1X There is a 2.17% of reference with a coverageData >= 2X There is a 0.75% of reference with a coverageData >= 3X There is a 0.28% of reference with a coverageData >= 4X There is a 0.12% of reference with a coverageData >= 5X There is a 0.05% of reference with a coverageData >= 6X There is a 0.03% of reference with a coverageData >= 7X There is a 0.02% 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% 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 27944399 0.1121136584851277 1.9839030012972199 chr2 243199373 28581786 0.11752409411022618 1.3302030295050635 chr3 198022430 22006535 0.11113152686794117 0.47097026589994007 chr4 191154276 19948870 0.10436005104065786 0.5247745469445535 chr5 180915260 19341397 0.10690859908666632 0.47766770526018676 chr6 171115067 18582738 0.10859790622645754 0.5922965659645426 chr7 159138663 17907766 0.1125293229339246 1.4220288105826415 chr8 146364022 15673865 0.1070882364793173 0.6736168693528929 chr9 141213431 14040271 0.09942588959544507 1.0777066132767166 chr10 135534747 19280800 0.14225724713973162 1.0471885282216147 chr11 135006516 15065886 0.11159376929629085 0.6418386408542176 chr12 133851895 14877979 0.11115254662625434 0.48603528925976264 chr13 115169878 9427248 0.08185515313300931 0.40166267423267604 chr14 107349540 9748718 0.09081285304063716 0.6260766293898503 chr15 102531392 9761924 0.09520912385545297 0.4366284996553525 chr16 90354753 9337839 0.10334640613759412 0.8622767760741139 chr17 81195210 9431480 0.11615808370961785 0.5767841431159064 chr18 78077248 7822441 0.10018848256536911 1.188852631153365 chr19 59128983 6846276 0.11578545161177557 1.8588411290169782 chr20 63025520 6926779 0.10990435303032803 0.5148303600831972 chr21 48129895 3792899 0.07880547007218694 0.4322389238536885 chr22 51304566 4124001 0.08038272850802403 0.4420652414933708 chrMT 16571 303943 18.34186228954197 10.879231429787245 chrX 155270560 14777186 0.09517055905511 0.5063348038502181 chrY 59373566 837295 0.014102151115531784 0.9261518514191659