BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525273.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 = 1,323,758 number of mapped reads = 1,208,749 (91.31%) number of supplementary alignments = 5,112 (0.39%) number of secondary alignments = 0 number of mapped bases = 70,113,545 bp number of sequenced bases = 70,090,167 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 38,128 duplication rate = 2.28% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1013 >>>>>>> ACTG content number of A's = 18,041,075 bp (25.74%) number of C's = 13,301,727 bp (18.98%) number of T's = 22,452,010 bp (32.03%) number of G's = 16,293,831 bp (23.25%) number of N's = 1,524 bp (0%) GC percentage = 42.22% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 355,472 number of insertions = 4,588 mapped reads with insertion percentage = 0.38% number of deletions = 14,806 mapped reads with deletion percentage = 1.22% homopolymer indels = 44.27% >>>>>>> Coverage mean coverageData = 0.0226X std coverageData = 0.2412X There is a 2.08% of reference with a coverageData >= 1X There is a 0.12% of reference with a coverageData >= 2X There is a 0.01% 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 7578536 0.03040528432625249 0.4196472894293479 chr2 243199373 5865834 0.0241194454066294 0.31714669848470906 chr3 198022430 5259667 0.026560965846141774 0.17514928502924465 chr4 191154276 4036156 0.021114651916026194 0.1595952748001071 chr5 180915260 3215180 0.017771745733333937 0.1418880093979468 chr6 171115067 4555356 0.02662159492945177 0.189656580179669 chr7 159138663 5218290 0.03279083725869935 0.4033947891240055 chr8 146364022 3505894 0.02395324993187192 0.22597428399930602 chr9 141213431 2337165 0.016550585758375914 0.17384916725463187 chr10 135534747 3664690 0.027038748963762037 0.24706259631622307 chr11 135006516 3212096 0.023792155335672836 0.20213019552293116 chr12 133851895 3130296 0.023386265842556805 0.16425345806038022 chr13 115169878 1618223 0.014050748582020725 0.13002142230684327 chr14 107349540 2634322 0.024539667333460396 0.1689220150056874 chr15 102531392 1330232 0.012973899739896246 0.12465035636293316 chr16 90354753 1813752 0.020073675592915407 0.16380271257536008 chr17 81195210 1186632 0.01461455669614008 0.132688271151846 chr18 78077248 1494153 0.01913685533588479 0.3388193559841246 chr19 59128983 1092703 0.018479989753924907 0.29223318097017614 chr20 63025520 1506085 0.023896431159949175 0.16540623058322218 chr21 48129895 909213 0.018890816196461678 0.1518666244851926 chr22 51304566 756204 0.014739506811148153 0.12820584015028375 chrMT 16571 168239 10.152616015931446 6.0437135455641435 chrX 155270560 3835552 0.024702377578853324 0.1782074681160435 chrY 59373566 189075 0.003184497963285547 0.09063363096141966