BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525083.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 = 453,013 number of mapped reads = 388,715 (85.81%) number of supplementary alignments = 1,485 (0.33%) number of secondary alignments = 0 number of mapped bases = 22,981,870 bp number of sequenced bases = 22,974,523 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,547 duplication rate = 2.31% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.2493 >>>>>>> ACTG content number of A's = 5,980,018 bp (26.03%) number of C's = 4,349,340 bp (18.93%) number of T's = 6,959,122 bp (30.29%) number of G's = 5,683,351 bp (24.74%) number of N's = 2,692 bp (0.01%) GC percentage = 43.67% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 107,924 number of insertions = 1,775 mapped reads with insertion percentage = 0.45% number of deletions = 4,490 mapped reads with deletion percentage = 1.15% homopolymer indels = 42.15% >>>>>>> Coverage mean coverageData = 0.0074X std coverageData = 0.1017X There is a 0.7% of reference with a coverageData >= 1X There is a 0.03% 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 1819563 0.007300134269274298 0.139827513338682 chr2 243199373 1950457 0.008019991893646864 0.11419680659131323 chr3 198022430 1532690 0.007739981778831822 0.09163246857532016 chr4 191154276 1485521 0.007771319748034305 0.09850985155807927 chr5 180915260 1384486 0.0076526767283202094 0.09103595954985888 chr6 171115067 1343232 0.007849875662906996 0.09433880105526246 chr7 159138663 1255004 0.007886229382233783 0.11188161049571496 chr8 146364022 1156812 0.007903663647614165 0.10382204202744419 chr9 141213431 948409 0.006716138778612354 0.09046494421333168 chr10 135534747 1103389 0.008141004608950944 0.11348206849322263 chr11 135006516 1060722 0.007856820777450474 0.09577141071417448 chr12 133851895 1015128 0.007583964351046356 0.09108352012342179 chr13 115169878 729448 0.006333669989647814 0.08303710508753367 chr14 107349540 683657 0.006368513549289545 0.08399973312148246 chr15 102531392 656214 0.006400127679920702 0.0835332295120018 chr16 90354753 684938 0.007580541999821526 0.09368154995242006 chr17 81195210 607457 0.007481438868130275 0.091218066322624 chr18 78077248 617883 0.007913739480162005 0.11638614744256337 chr19 59128983 476636 0.008060953796550162 0.12360279558338488 chr20 63025520 478996 0.0076000324947735455 0.09140380264084617 chr21 48129895 305073 0.006338534501269949 0.09018501527749567 chr22 51304566 281364 0.005484190237570668 0.07703638402349314 chrMT 16571 2487 0.1500814676241627 0.38422421722635425 chrX 155270560 1318919 0.008494327578904849 0.0984010921858829 chrY 59373566 83385 0.0014044128661566328 0.05941059358774484