BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524895.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 = 1,921,635 number of mapped reads = 1,774,406 (92.34%) number of supplementary alignments = 6,022 (0.31%) number of secondary alignments = 0 number of mapped bases = 103,556,506 bp number of sequenced bases = 103,525,745 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 79,953 duplication rate = 3.39% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.2228 >>>>>>> ACTG content number of A's = 25,836,829 bp (24.96%) number of C's = 18,278,876 bp (17.66%) number of T's = 32,562,965 bp (31.45%) number of G's = 26,833,969 bp (25.92%) number of N's = 13,106 bp (0.01%) GC percentage = 43.58% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 506,304 number of insertions = 6,941 mapped reads with insertion percentage = 0.39% number of deletions = 19,407 mapped reads with deletion percentage = 1.08% homopolymer indels = 44.52% >>>>>>> Coverage mean coverageData = 0.0335X std coverageData = 0.3227X There is a 2.97% of reference with a coverageData >= 1X There is a 0.27% of reference with a coverageData >= 2X There is a 0.04% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 8375228 0.033601633433844084 0.6498809630252753 chr2 243199373 8760709 0.03602274500929737 0.3450168712821448 chr3 198022430 6967873 0.03518729166185871 0.20597654489563155 chr4 191154276 6671897 0.034903205618063184 0.23047483292232304 chr5 180915260 6376366 0.035245042347450406 0.20789825889593275 chr6 171115067 5999699 0.03506236537312053 0.22536923175880397 chr7 159138663 4975461 0.0312649415685992 0.38486442525690995 chr8 146364022 5489292 0.03750438068721561 0.3214107148703857 chr9 141213431 4420792 0.031305747397356275 0.27715181203360106 chr10 135534747 4966089 0.036640707345696376 0.30971227607933544 chr11 135006516 4742239 0.035126000881320424 0.2946187536038029 chr12 133851895 4662147 0.034830638744412244 0.21169236101066655 chr13 115169878 3293650 0.0285981895370246 0.18575121499979919 chr14 107349540 3167831 0.029509497665290416 0.19718129531461523 chr15 102531392 2977855 0.029043348987205793 0.18690323106193257 chr16 90354753 3061328 0.033881206005842324 0.21937796073722865 chr17 81195210 2805448 0.034551890437871886 0.2226135190862162 chr18 78077248 2769654 0.035473253360569265 0.5536495900934655 chr19 59128983 2049510 0.03466168190310325 0.4395807068473338 chr20 63025520 2194487 0.03481902251659328 0.21218302211113949 chr21 48129895 1364564 0.028351692851189474 0.20724302487059154 chr22 51304566 1221124 0.023801468274773047 0.16911412157951067 chrMT 16571 48709 2.939412226178263 2.311528411873486 chrX 155270560 5882698 0.03788675715473687 0.24831877526934257 chrY 59373566 311856 0.0052524384336288645 0.14251151529561673