BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524396.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 = 1,744,602 number of mapped reads = 1,613,910 (92.51%) number of supplementary alignments = 6,268 (0.36%) number of secondary alignments = 0 number of mapped bases = 94,665,447 bp number of sequenced bases = 94,638,717 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 64,099 duplication rate = 2.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8455 >>>>>>> ACTG content number of A's = 24,431,174 bp (25.82%) number of C's = 18,519,854 bp (19.57%) number of T's = 29,422,567 bp (31.09%) number of G's = 22,253,352 bp (23.51%) number of N's = 11,770 bp (0.01%) GC percentage = 43.08% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 459,411 number of insertions = 5,809 mapped reads with insertion percentage = 0.36% number of deletions = 16,799 mapped reads with deletion percentage = 1.03% homopolymer indels = 44.62% >>>>>>> Coverage mean coverageData = 0.0306X std coverageData = 0.3119X There is a 2.75% of reference with a coverageData >= 1X There is a 0.22% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% 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 7996362 0.032081613148719094 0.6766092187682042 chr2 243199373 7639393 0.03141205878026668 0.34303395310726464 chr3 198022430 6532462 0.03298849529318472 0.19674462723493016 chr4 191154276 6329208 0.03311047041396029 0.22186924718886142 chr5 180915260 5829146 0.03222031132144408 0.19501248908902782 chr6 171115067 3698390 0.021613467854353235 0.1745427541648841 chr7 159138663 5452795 0.03426442636381832 0.42999999640307973 chr8 146364022 5001917 0.03417449815638436 0.275997307862877 chr9 141213431 3528258 0.02498528627917836 0.2224644929243491 chr10 135534747 4671246 0.03446530209703346 0.2782851378848883 chr11 135006516 3982314 0.02949719849077507 0.2399634447942741 chr12 133851895 4394715 0.03283266927225797 0.2018440637567097 chr13 115169878 3089290 0.02682376723538771 0.17847412521218045 chr14 107349540 2625531 0.024457775971839284 0.17611648293903595 chr15 102531392 2898456 0.02826896176343729 0.18182302544393975 chr16 90354753 2819042 0.031199708995939594 0.2004084174570336 chr17 81195210 2571531 0.03167096926037878 0.21230263511669104 chr18 78077248 2598590 0.03328229499072508 0.39115018962495623 chr19 59128983 2611836 0.044171840398472606 0.4685174639588491 chr20 63025520 2648813 0.04202762626948576 0.23002449733824412 chr21 48129895 1310814 0.027234923325720948 0.19741182351367254 chr22 51304566 662133 0.01290592732038704 0.1220385320592153 chrMT 16571 61509 3.7118459960171384 2.925799325939861 chrX 155270560 5433195 0.03499179110322008 0.22715344499936346 chrY 59373566 278501 0.004690656444654175 0.12751601737202767