BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524937.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 = 413,689 number of mapped reads = 385,353 (93.15%) number of supplementary alignments = 1,597 (0.39%) number of secondary alignments = 0 number of mapped bases = 22,844,182 bp number of sequenced bases = 22,837,097 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,004 duplication rate = 2.17% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.4069 >>>>>>> ACTG content number of A's = 5,641,935 bp (24.71%) number of C's = 4,427,611 bp (19.39%) number of T's = 7,173,560 bp (31.41%) number of G's = 5,593,808 bp (24.49%) number of N's = 183 bp (0%) GC percentage = 43.88% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 110,607 number of insertions = 1,563 mapped reads with insertion percentage = 0.4% number of deletions = 4,187 mapped reads with deletion percentage = 1.08% homopolymer indels = 41.81% >>>>>>> Coverage mean coverageData = 0.0074X std coverageData = 0.0995X There is a 0.69% of reference with a coverageData >= 1X There is a 0.04% 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 2394802 0.009608008158182283 0.13300146585147007 chr2 243199373 1971714 0.008107397546621141 0.11405077577472976 chr3 198022430 1532552 0.007739284888080608 0.09212100855333841 chr4 191154276 988728 0.005172408489569964 0.08599506562403153 chr5 180915260 1304252 0.007209187328918522 0.08911449170291397 chr6 171115067 1429517 0.008354126992218634 0.09688826024497495 chr7 159138663 1329389 0.008353651934351114 0.10475624281588576 chr8 146364022 1879050 0.012838195987809081 0.1375829515913528 chr9 141213431 890800 0.0063081818329306085 0.08702073704788203 chr10 135534747 971659 0.007169076723919365 0.10719545621797484 chr11 135006516 1184968 0.008777117098555451 0.1008562637816592 chr12 133851895 716239 0.005350981396266373 0.0770307251628108 chr13 115169878 431171 0.0037437827276330013 0.06408804808174255 chr14 107349540 428742 0.003993887631004288 0.06621497695877042 chr15 102531392 620727 0.006054019046186362 0.081435583505702 chr16 90354753 728870 0.008066758812344936 0.09577553981705614 chr17 81195210 741576 0.009133248131262916 0.10131328023893622 chr18 78077248 583603 0.007474687120119807 0.10766990119398773 chr19 59128983 508492 0.0085997082006298 0.11140299056044846 chr20 63025520 462222 0.007333886336836253 0.09080616120006614 chr21 48129895 229778 0.004774122195778736 0.0806662644017471 chr22 51304566 585150 0.011405417599673293 0.11313657451009934 chrMT 16571 5725 0.34548307283809065 0.6645914670804179 chrX 155270560 856454 0.005515881439469272 0.07931668832874025 chrY 59373566 68002 0.0011453245035004298 0.0586689034208557