| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,987,992 | C→A | 10.2% | R152R (CGC→CGA) | PP_1779 → | lipopolysaccharide ABC transporter ATP‑binding protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,987,992 | 0 | C | A | 10.2% | 169.4 / 8.6 | 59 | R152R (CGC→CGA) | PP_1779 | lipopolysaccharide ABC transporter ATP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base C (26/27); new base A (3/3); total (29/30) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.73e-01 | |||||||||||
GCCGCCAGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGCTTTTGATAGTGTCA > NC_002947/1987844‑1988139 | gccgccAGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATgcgc > 4:306450/1‑149 (MQ=255) gccAGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTc > 5:42827/1‑149 (MQ=255) ccAGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCg < 4:86028/149‑1 (MQ=255) aGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCa < 5:251602/149‑1 (MQ=255) aGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCa < 3:181032/149‑1 (MQ=255) aaCGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCAtt < 6:296040/149‑1 (MQ=255) gtgtACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGACGCGCATTTGc < 4:307851/149‑1 (MQ=255) gtACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATgcgc > 2:122077/1‑136 (MQ=255) gtACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATgcgc < 1:122077/136‑1 (MQ=255) cGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGa < 3:306450/149‑1 (MQ=255) tGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTg > 8:24913/1‑149 (MQ=255) tGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGtt > 4:8192/1‑145 (MQ=255) tGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGtt < 3:8192/145‑1 (MQ=255) tGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTa < 3:159299/149‑1 (MQ=255) cagcagATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTAtcgt < 2:30539/149‑1 (MQ=255) agcagATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTAtcgtc < 6:42827/149‑1 (MQ=255) aTCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGAAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTGGAt > 8:204337/1‑147 (MQ=255) aTCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTACAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGAt > 5:96912/1‑147 (MQ=255) aaTGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGAGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGgc > 4:128481/1‑149 (MQ=255) gTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGt > 8:77251/1‑148 (MQ=255) tgaCATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGa < 5:235982/129‑1 (MQ=255) tgaCATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGa > 6:235982/1‑129 (MQ=255) gaCATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGa > 3:352223/1‑149 (MQ=255) aTTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAg > 4:129106/1‑149 (MQ=255) ccTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAggg > 3:239373/1‑137 (MQ=255) ccTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAggg < 4:239373/137‑1 (MQ=255) cTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTc < 3:128481/148‑1 (MQ=255) tttGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCATACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTc > 4:87649/1‑147 (MQ=255) tGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAg < 7:24913/148‑1 (MQ=255) tGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAg < 4:109366/148‑1 (MQ=255) cGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGcac < 3:164690/148‑1 (MQ=255) gagaTTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGcac > 5:172031/1‑147 (MQ=255) ttGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTa > 3:11156/1‑99 (MQ=255) ttGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTa < 4:11156/99‑1 (MQ=255) gCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGtttt > 4:75447/1‑149 (MQ=255) gAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTAtcgtcg > 2:297417/1‑100 (MQ=255) gAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTAtcgtcg < 1:297417/100‑1 (MQ=255) gAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGgc < 6:359653/107‑1 (MQ=255) gAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGgc > 5:359653/1‑107 (MQ=255) gAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGa < 7:77251/149‑1 (MQ=255) aGTACTTTGATGAGGCAGTGCGTACCTATTACAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGTCTGCGTTCCGGCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTcc < 2:43774/132‑1 (MQ=255) gTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAgc < 6:172031/149‑1 (MQ=255) tgatgaGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAgggg > 2:4495/1‑113 (MQ=255) tgatgaGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAgggg < 1:4495/113‑1 (MQ=255) atgaGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGt < 4:352223/149‑1 (MQ=255) aGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGa < 5:195731/132‑1 (MQ=255) aGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGa > 6:195731/1‑132 (MQ=255) tgtgTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAg > 2:88355/4‑149 (MQ=255) gTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCgg > 3:247125/1‑149 (MQ=255) aCCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCt > 3:338444/1‑149 (MQ=255) tATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGAGCATCCGTGAGTTCCAGCGGCTgg > 7:118930/1‑148 (MQ=255) cAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACAt > 7:64407/1‑149 (MQ=255) cAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACAt > 5:156250/1‑149 (MQ=255) gccacggCAAATGCGACGCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGc > 4:87850/7‑149 (MQ=255) cGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGc < 3:87649/149‑1 (MQ=255) gTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGtt < 7:11176/108‑1 (MQ=255) gTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGtt > 8:11176/1‑108 (MQ=255) tATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGCttt < 4:247125/149‑1 (MQ=255) acggCAAATGCGACGCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGCttt < 3:87850/146‑1 (MQ=255) cggCAAATGCGACGCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGCtttt > 8:336496/3‑149 (MQ=255) cAAATGCGACGCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTg > 6:92894/1‑132 (MQ=255) cAAATGCGACGCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTg < 5:92894/132‑1 (MQ=255) gcgTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGCTTTTGATAGTGTca > 1:218030/1‑149 (MQ=255) | GCCGCCAGAACGTGTACCACGCTGCGGGTCTGATGGGTTTCGATGTACAGCAGATCAATGATGTCATTGATGACATTGAAGCCTTTGCCGAGATTGGCGAGTACTTTGATGAGGCAGTGCGTACCTATTCCAGCGGTATGCAAATGCGCGTCGCATTTGCCGTGGCGACTGCGTTCCGTCCAGAAATCCTTATCGTCGATGAGGCGCTGTCAGTAGGGGACAGCTATTTCCAGCACAAGAGTTTTGAGCGCATCCGTGAGTTCCAGCGGCTGGGAACATCGCTTTTGATAGTGTCA > NC_002947/1987844‑1988139 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |