BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525230.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 = 489,157 number of mapped reads = 454,874 (92.99%) number of supplementary alignments = 1,538 (0.31%) number of secondary alignments = 0 number of mapped bases = 27,169,078 bp number of sequenced bases = 27,159,997 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,238 duplication rate = 1.38% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.1918 >>>>>>> ACTG content number of A's = 6,687,397 bp (24.62%) number of C's = 5,430,458 bp (19.99%) number of T's = 8,294,082 bp (30.54%) number of G's = 6,747,506 bp (24.84%) number of N's = 554 bp (0%) GC percentage = 44.84% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 134,878 number of insertions = 1,562 mapped reads with insertion percentage = 0.34% number of deletions = 5,487 mapped reads with deletion percentage = 1.2% homopolymer indels = 44.33% >>>>>>> Coverage mean coverageData = 0.0088X std coverageData = 0.1126X There is a 0.84% 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 2205358 0.008847953883332552 0.16400102833537017 chr2 243199373 2307598 0.009488503080968057 0.12537664504932983 chr3 198022430 1783753 0.009007833102542979 0.09816026475206639 chr4 191154276 1743343 0.009120083717091424 0.10189228976460694 chr5 180915260 1610495 0.008901930108051691 0.09702850338969662 chr6 171115067 1572087 0.009187309028725098 0.10210652133747203 chr7 159138663 1537450 0.009661071489585156 0.13731537536826222 chr8 146364022 1369899 0.009359533724756484 0.10878568352491635 chr9 141213431 1126145 0.007974772597940773 0.10212477843755181 chr10 135534747 1323914 0.009768078144566131 0.11911030299134151 chr11 135006516 1239176 0.009178638459198517 0.10714191268836926 chr12 133851895 1212429 0.009057989055739554 0.09845757721532114 chr13 115169878 821522 0.0071331325018856055 0.0871044252407326 chr14 107349540 814180 0.007584382755622427 0.09045156460091675 chr15 102531392 772318 0.0075325028260613104 0.08958206063643882 chr16 90354753 801219 0.008867480385896246 0.1006580775449743 chr17 81195210 775068 0.009545735518142019 0.10311114373270572 chr18 78077248 717199 0.009185761772751006 0.1481645584656705 chr19 59128983 564785 0.009551745545834942 0.1310535225351605 chr20 63025520 583175 0.009252997833258655 0.09986987801836063 chr21 48129895 365591 0.007595923489963982 0.09391505428727599 chr22 51304566 349598 0.006814169327540944 0.08530158480219409 chrMT 16571 3195 0.19280671051837547 0.5260105871219657 chrX 155270560 1483178 0.009552216466534287 0.10353517317041039 chrY 59373566 86403 0.0014552435674825392 0.05283625916261895