| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 4,970,049 | C→A | 10.5% | G80V (GGC→GTC) | fliC ← | flagellin |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,970,049 | 0 | C | A | 10.5% | 174.6 / 7.8 | 57 | G80V (GGC→GTC) | fliC | flagellin |
| Reads supporting (aligned to +/- strand): ref base C (29/22); new base A (4/2); total (33/24) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.96e-01 | |||||||||||
TGGTGTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCAGAGGACA > NC_002947/4969900‑4970193 | tggtgTTAGCAATACGGGGCAACTCGACCGACAGCGCGGTAATCTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGgcgc < 1:1426074/150‑1 (MQ=255) gtgtTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCt > 1:154357/1‑150 (MQ=255) gCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTcagca > 1:972228/1‑150 (MQ=255) gCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTcaggc < 2:573774/150‑3 (MQ=255) aTACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGTTGGAGGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGtt > 1:785804/1‑150 (MQ=255) gCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATag < 1:686220/150‑1 (MQ=255) gCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGtt < 1:515063/136‑1 (MQ=255) gCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGtt > 2:515063/1‑136 (MQ=255) gCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGAt > 1:697983/1‑150 (MQ=255) ccGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATAc < 1:134315/150‑1 (MQ=255) aGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATa < 1:1335375/144‑1 (MQ=255) aGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATa > 2:1335375/1‑144 (MQ=255) gctgcATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCg < 2:697983/150‑1 (MQ=255) aTGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACg > 2:202579/1‑150 (MQ=255) ggAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCt > 2:1352148/1‑150 (MQ=255) gcgGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGAcc > 2:276855/1‑150 (MQ=255) tcATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatt < 1:1352148/150‑1 (MQ=255) tcATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTcag < 1:759700/88‑1 (MQ=255) tcATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTcag > 2:759700/1‑88 (MQ=255) aTCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttg > 2:797073/1‑150 (MQ=255) aTCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttg > 1:979464/1‑150 (MQ=255) tCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATa > 1:547721/1‑99 (MQ=255) tCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATa < 2:547721/99‑1 (MQ=255) tCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttga < 1:202579/150‑1 (MQ=255) tGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTgg > 1:216168/1‑150 (MQ=255) tCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCa < 2:154357/150‑1 (MQ=255) gAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGa < 1:276855/150‑1 (MQ=255) gTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgattt < 2:830070/134‑1 (MQ=255) gTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgattt > 1:830070/1‑134 (MQ=255) tCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGTGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTgg > 2:537303/1‑150 (MQ=255) gCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGTGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGgag < 1:537303/150‑1 (MQ=255) ccGATTGCAGGGCCAGTTCACGCATAGGCTGCATTATGTTGCCTGAAGTAGCCATGGCGCCTTCAGCAGTTGGCTCAATAGAGATACGATCGTTGGCGTTTTTGACCGCAGAGGTGAGACCTTTGATGTGAGTGGTCAAGCGGGTGgagg > 1:75369/1‑149 (MQ=255) aTTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCt < 1:797073/150‑1 (MQ=255) cAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAg > 1:854045/1‑150 (MQ=255) aGGGCCAGTTCACGCATACGCTGCATGATGTTGCATGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAgg > 1:481132/1‑150 (MQ=255) ccAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTg > 2:885207/1‑150 (MQ=255) ttCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCttt < 1:379537/108‑1 (MQ=255) ttCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCttt > 2:379537/1‑108 (MQ=255) gCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttga < 2:413953/104‑1 (MQ=255) gCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttga > 1:413953/1‑104 (MQ=255) tGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCa > 2:206560/1‑150 (MQ=255) atgatgTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTg > 1:335327/1‑150 (MQ=255) atgatgTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTg > 2:257464/1‑150 (MQ=255) gatgTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGtt > 2:1331998/1‑150 (MQ=255) gatgTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTAGGCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGtt > 1:667240/1‑150 (MQ=255) tgTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGa < 2:979464/150‑1 (MQ=255) gTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGAt < 2:854045/150‑1 (MQ=255) ttGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCttt > 1:1249170/1‑137 (MQ=255) ttGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCttt < 2:1249170/137‑1 (MQ=255) ccTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGt < 2:258472/103‑1 (MQ=255) ccTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGt > 1:258472/1‑103 (MQ=255) cTGAAGGCGCCATGGCGACTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCa > 2:582594/1‑150 (MQ=255) gAAGGCGCCATGGCGACTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAgg > 2:1203216/1‑150 (MQ=255) gAAGGCGCCATGGCGACTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAgg > 2:1203352/1‑150 (MQ=255) cGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATAGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCaga < 2:972228/150‑1 (MQ=255) ccATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAg > 2:718144/1‑106 (MQ=255) ccATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAg < 1:718144/106‑1 (MQ=255) tGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCCATACCTCAAGGTGGCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCAGAGGACa < 2:49096/150‑1 (MQ=255) gcgcCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGcgtc < 2:1254898/113‑1 (MQ=255) gcgcCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGcgtc > 1:1254898/1‑113 (MQ=255) | TGGTGTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCAGAGGACA > NC_002947/4969900‑4970193 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |