BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714209.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 141,638 number of mapped reads = 17,607 (12.43%) number of supplementary alignments = 867 (0.61%) number of secondary alignments = 0 number of mapped bases = 1,774,372 bp number of sequenced bases = 1,766,375 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,328 duplication rate = 19.99% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 23.7459 >>>>>>> ACTG content number of A's = 137,403 bp (7.78%) number of C's = 64,384 bp (3.64%) number of T's = 81,517 bp (4.61%) number of G's = 1,483,035 bp (83.96%) number of N's = 36 bp (0%) GC percentage = 87.6% >>>>>>> Mismatches and indels general error rate = 0.0394 number of mismatches = 47,772 number of insertions = 2,916 mapped reads with insertion percentage = 10.74% number of deletions = 1,521 mapped reads with deletion percentage = 8.27% homopolymer indels = 65.68% >>>>>>> Coverage mean coverageData = 0.0006X std coverageData = 1.7342X There is a 0% of reference with a coverageData >= 1X There is a 0% 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 21812 8.751031356507634E-5 0.12360540998617951 chr2 243199373 1456348 0.005988288464871988 6.183562091128215 chr3 198022430 8068 4.074285928114305E-5 0.008320027000469325 chr4 191154276 9796 5.124656484273467E-5 0.009865453288295856 chr5 180915260 9763 5.3964491442015446E-5 0.008313053773926386 chr6 171115067 7872 4.600413124345152E-5 0.008602029393274504 chr7 159138663 13167 8.273916439778057E-5 0.028854055264111188 chr8 146364022 6244 4.266075716339634E-5 0.008832281440709239 chr9 141213431 5345 3.785050729345992E-5 0.0077244515494672965 chr10 135534747 19111 1.4100443187458047E-4 0.16376266385881305 chr11 135006516 9367 6.93818363552171E-5 0.01802369767963352 chr12 133851895 17036 1.2727500047720653E-4 0.048604385814456696 chr13 115169878 3825 3.321180908084317E-5 0.007092144796607776 chr14 107349540 6020 5.6078489018210976E-5 0.022115395388763923 chr15 102531392 5232 5.1028274345480456E-5 0.014660711446984586 chr16 90354753 4904 5.427495330544482E-5 0.01015554069679989 chr17 81195210 6208 7.64577122221865E-5 0.05000671220674228 chr18 78077248 5290 6.775341262028088E-5 0.01980751574079228 chr19 59128983 3079 5.2072602026657556E-5 0.010767092874074954 chr20 63025520 5932 9.412060384428402E-5 0.030992557108355145 chr21 48129895 1727 3.588206456714688E-5 0.007310091878881154 chr22 51304566 918 1.7893144247628954E-5 0.004519591974132017 chrMT 16571 8766 0.5289964395630922 2.533201403799408 chrX 155270560 131893 8.494398422985014E-4 0.13110642572271794 chrY 59373566 6649 1.1198586253013673E-4 0.025022851373384877