BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751203.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 4,635,749 number of mapped reads = 4,517,083 (97.44%) number of supplementary alignments = 35,883 (0.77%) number of secondary alignments = 0 number of mapped bases = 649,410,843 bp number of sequenced bases = 649,137,409 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 540,387 duplication rate = 8.86% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.2507 >>>>>>> ACTG content number of A's = 186,653,461 bp (28.75%) number of C's = 137,790,137 bp (21.23%) number of T's = 188,970,773 bp (29.11%) number of G's = 135,703,274 bp (20.91%) number of N's = 19,764 bp (0%) GC percentage = 42.13% >>>>>>> Mismatches and indels general error rate = 0.0076 number of mismatches = 4,598,759 number of insertions = 89,370 mapped reads with insertion percentage = 1.84% number of deletions = 91,118 mapped reads with deletion percentage = 1.91% homopolymer indels = 41.27% >>>>>>> Coverage mean coverageData = 0.2098X std coverageData = 3.3183X There is a 16.24% of reference with a coverageData >= 1X There is a 3.04% of reference with a coverageData >= 2X There is a 0.55% of reference with a coverageData >= 3X There is a 0.11% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.02% of reference with a coverageData >= 7X There is a 0.01% 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 0.01% of reference with a coverageData >= 13X There is a 0.01% of reference with a coverageData >= 14X There is a 0.01% of reference with a coverageData >= 15X There is a 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% of reference with a coverageData >= 18X There is a 0.01% of reference with a coverageData >= 19X There is a 0.01% of reference with a coverageData >= 20X There is a 0.01% of reference with a coverageData >= 21X There is a 0.01% of reference with a coverageData >= 22X There is a 0.01% of reference with a coverageData >= 23X There is a 0.01% of reference with a coverageData >= 24X There is a 0.01% of reference with a coverageData >= 25X There is a 0.01% of reference with a coverageData >= 26X There is a 0.01% of reference with a coverageData >= 27X There is a 0.01% of reference with a coverageData >= 28X There is a 0.01% of reference with a coverageData >= 29X There is a 0.01% of reference with a coverageData >= 30X There is a 0.01% of reference with a coverageData >= 31X There is a 0.01% of reference with a coverageData >= 32X There is a 0.01% of reference with a coverageData >= 33X There is a 0.01% of reference with a coverageData >= 34X There is a 0.01% 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 75328286 0.3022190504391963 7.856527341057844 chr2 243199373 48355936 0.19883248629921427 1.3178055925425307 chr3 198022430 40824876 0.20616288770923577 0.8088816358744925 chr4 191154276 29668320 0.15520615400724805 2.1241904339987845 chr5 180915260 49274504 0.27236234245801044 0.6025464653313011 chr6 171115067 34864274 0.20374754024436667 1.359200771567954 chr7 159138663 35990537 0.226158347201899 1.6229245246173816 chr8 146364022 30862630 0.21086213386511066 0.6983402999211227 chr9 141213431 28213004 0.19978980611270608 1.6799631989216206 chr10 135534747 37853181 0.27928765012561685 9.383396714171791 chr11 135006516 29032241 0.21504325761580279 1.3280860966276082 chr12 133851895 33092360 0.2472311654608999 0.6381819729445826 chr13 115169878 17620848 0.15299875545583194 0.4352343559860847 chr14 107349540 13537980 0.1261112064383322 0.41914858073495187 chr15 102531392 16110430 0.15712680463754944 0.48181104873560354 chr16 90354753 22425541 0.24819437002943276 3.2133390799844106 chr17 81195210 19670810 0.2422656459660613 1.161736431687602 chr18 78077248 13368488 0.17122130124258478 2.604092364854375 chr19 59128983 14221765 0.2405210487046598 4.974690653466555 chr20 63025520 12615004 0.20015707922758907 0.961088800997755 chr21 48129895 8440007 0.175358932322624 1.4207475196701194 chr22 51304566 8612526 0.16787055561487452 0.46624473436295444 chrMT 16571 1134035 68.43491642025225 15.506721399379796 chrX 155270560 25988270 0.16737409847687804 0.5928895803008055 chrY 59373566 2304990 0.03882182181882085 2.5315051426761785