| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 6,004,987 | T→G | 16.4% | intergenic (+25/‑151) | PP_5259 → / → ydcJ | LysR family transcriptional regulator/metalloprotein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 6,004,987 | 0 | T | G | 16.4% | 122.8 / 15.5 | 54 | intergenic (+25/‑151) | PP_5259/ydcJ | LysR family transcriptional regulator/metalloprotein |
| Reads supporting (aligned to +/- strand): ref base T (21/24); new base G (5/4); total (26/28) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.24e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
GCCGTGGAACCATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAACCCAACCAGG > NC_002947/6004842‑6005128 | gCCGTGGAACCATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTcc > 1:277017/1‑148 (MQ=255) gTGGAACCATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCCTTTCCCGGCTAAAGCCGCGCCTACg > 4:197700/1‑149 (MQ=255) tGGAACCATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGAGGGCGCTGGTGGAATGGATTGGCGAGCAGGTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTACTACgg > 5:237482/1‑149 (MQ=255) aCCATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGAc > 6:105077/1‑149 (MQ=255) ccATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGAcc < 3:264344/149‑1 (MQ=255) cATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACcg > 6:165044/1‑149 (MQ=255) cATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCCGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTAGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACcg > 1:29320/1‑149 (MQ=255) cAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTa < 5:105077/149‑1 (MQ=255) cgcAGTGGCGGTGCGGATTACCTGGCGTATGCCGTGGATGGGGCAGAGGTGCCAATGGTGCGTGCGCTGGTGGAATGGATTGGCGAGGAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGgcgc < 2:88086/149‑1 (MQ=255) tGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGTGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCGCCTACGCGGTCCCCGTAGGAGCGGCtt < 8:3829/149‑1 (MQ=38) ccGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCtt > 8:265570/1‑147 (MQ=255) gcgcATTACCTGGCGTATGCCGAGCCTGCGGCAGAGGTGCCAACGGTGCGGGCGCTGGTGGAATGGATTGGCTAGCAGTTGCAGGGTTGACGGCCTCTTCGCGGCTAACGCCGCTCCTCCGGTGACCGCGTAGGCGCGGCTTTAGCCgg < 1:75527/149‑1 (MQ=255) gcgcATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCCTTTCCCGGCTAAAGCCGCGCCTACGCGGTCCCCGTAGGAGCGGCTTTAGCCgc < 3:197700/149‑2 (MQ=25) cATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGa > 5:315157/1‑148 (MQ=255) aCCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑g‑g < 2:277017/148‑1 (MQ=255) cTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCCCGGCTAAAGCCGCGCCTACGCGGTCCCCGTAGGAGCGGCTTTAGCCGCGaa < 7:245175/143‑1 (MQ=25) cTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCCCGGCTAAAGCCGCGCCTACGCGGTCCCCGTAGGAGCGGCTTTAGCCGCGaa > 8:245175/1‑143 (MQ=25) cTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGGTGCAGGTTTGCCGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGGAGGCGGGGCGTTAGGCGGGAAC‑G‑GGcc > 8:209357/1‑149 (MQ=39) gCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTc > 5:121852/1‑149 (MQ=255) aGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATc < 4:74850/149‑1 (MQ=255) gCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAg > 6:281208/1‑148 (MQ=255) gagGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAAt < 3:226510/149‑1 (MQ=255) ggTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGa < 6:315157/149‑1 (MQ=255) gTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGac < 7:265570/149‑1 (MQ=255) ccAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGacaca < 7:53422/149‑1 (MQ=255) cAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCCTTTCCCGGCTAAAGCCGCGCCTACGCGGTCCCCGTAGGAGCGGCTTTAGCCGCGAAG‑A‑GGCCg < 5:96795/119‑1 (MQ=14) cAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCCTTTCCCGGCTAAAGCCGCGCCTACGCGGTCCCCGTAGGAGCGGCTTTAGCCGCGAAG‑A‑GGCCg > 6:96795/1‑119 (MQ=14) ggCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTAGCGGCTAAAGCCGCTCCTACGGGGAc > 4:102904/1‑76 (MQ=255) ggCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTAGCGGCTAAAGCCGCTCCTACGGGGAc < 3:102904/76‑1 (MQ=255) gcTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCg > 2:235410/1‑149 (MQ=255) gtggAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCtt < 6:121852/148‑1 (MQ=255) tggAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTtgt < 6:267417/149‑1 (MQ=255) gcaTGGCTTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGa < 2:282786/147‑1 (MQ=255) gAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGa < 1:235410/149‑1 (MQ=255) aaTGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAg > 2:194581/1‑149 (MQ=255) aTGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGc < 4:94530/141‑1 (MQ=255) aTGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGc > 3:94530/1‑141 (MQ=255) aggtGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCa < 8:122266/146‑1 (MQ=255) gCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCt < 5:229536/148‑1 (MQ=255) gCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCt > 6:229536/1‑148 (MQ=255) gCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCGGCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGTAA‑G‑GGGCGTCGAGGTCGATCAAAAAAGGGATGACCCACTCACTTTTTTTGGGTGGTGAGCAAAGGGCGTTCCCCGCtt > 5:185034/1‑149 (MQ=255) gTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAg > 1:206198/1‑142 (MQ=255) gTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAg < 2:206198/142‑1 (MQ=255) gTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCAt > 3:222370/1‑149 (MQ=255) tttGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAATGTGGCGGGGGAGGGCGATCAAAAAAGGAATGACACACTCCCTTTTTTTCCGTTGTGGGCAAGGTGCATTCCACGCtttaa > 1:256580/1‑147 (MQ=255) tGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGt < 1:194581/148‑1 (MQ=255) ttCGCGGCTAAAGCCGCTCCTACCGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCAGa > 4:167539/1‑148 (MQ=255) aaGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAACCCAACCa < 2:29320/147‑1 (MQ=255) aaGCCGCTCCTACGGGGACCGCGTAGGCGAGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAACCCAACCa < 5:165044/147‑1 (MQ=255) gCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCAtt < 2:169840/112‑1 (MQ=255) gCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCAtt > 1:169840/1‑112 (MQ=255) gCCGCGCCTACGCGGTCCCCGTAGGAGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAACCCAACCAgg > 1:291615/1‑147 (MQ=38) gCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAAcc < 6:4213/136‑1 (MQ=255) gCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAAcc > 5:4213/1‑136 (MQ=255) | GCCGTGGAACCATGCAATGCGCAGTGCCGGAGCGCATTACCTGGCGTATGCCGAGCATGCGGCAGAGGTGCCAAAGGTGCGGGCGCTGGTGGAATGGATTGGCGAGCAGTTGCAGGTTTGACGGCCTCTTCGCGGCTAAAGCCGCTCCTACGGGGACCGCGTAGGCGCGGCTTTAGCCGGGAAA‑G‑GGCCGTCGAGGTCGATCAAAAAAGGAATGACACACTCACTTTTTTTCGCTTGTGAGCAAAGTGCATTCCCAGCTTTCATGTAAGCGTCCGAACCCAACCAGG > NC_002947/6004842‑6005128 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |