| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 3,370,206 | C→A | 17.8% | E192* (GAG→TAG) | sspA ← | stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,370,206 | 0 | C | A | 17.8% | 63.7 / 10.0 | 34 | E192* (GAG→TAG) | sspA | stringent starvation protein A, phage P1 late gene activator, RNAP‑associated acid‑resistance protein, inactive glutathione S‑transferase homolog |
| Reads supporting (aligned to +/- strand): ref base C (11/17); new base A (3/3); total (14/20) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.72e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.39e-01 | |||||||||||
GTTATCCAGCAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAGGCTGAACTCATCGCTCAGGAAGTACGGCTTCTGACCGA > CP009273/3370064‑3370352 | gTTATCCAGCAACCACTCATAGAGTGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTAAAAGAc < 2:254025/149‑1 (MQ=255)gTTATCCAGCAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTc > 1:172838/1‑143 (MQ=255) ccAGCAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGa < 1:171135/143‑1 (MQ=255) cAGCAACCACTCATAGAATGCACGCAGCAGATAGGGCCGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAACGAAAGAGTCACGCCCAAAGAc > 1:64202/1‑143 (MQ=255) cAGCAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGt > 2:189213/1‑149 (MQ=255) cAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCCGGTAAAGAAGCAAGGGAAGAGTCCCGCTCAAAGACGCGGGTCat > 2:118947/1‑149 (MQ=255) cAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGATGTTAGCTGTGACAAATCCATACGGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGAcgcg > 1:231803/1‑143 (MQ=255) aTAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCttt > 2:348424/1‑149 (MQ=255) gCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTAAAAGACGCGGGTCATATAGCCTTTc < 1:15094/143‑1 (MQ=255) agATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTc < 1:61306/143‑1 (MQ=255) aTAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGc < 1:495636/143‑1 (MQ=255) ggACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTAAAAGACGCGGGTCATATAGCCTTTCAGCCCTTTCGCAccc > 1:341176/1‑143 (MQ=255) gtgtTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGa < 2:511641/149‑1 (MQ=255) gCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCATCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTAATAAAGCCTTTCAGCTCTTTCGCACCCCGGCCGCTGAACTCGa > 1:199883/1‑143 (MQ=255) cTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAGGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCCGAAATCGag > 1:116178/1‑142 (MQ=255) tgACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCATCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCCGCTCTTTCGCACCACGGCCGCTGAACGCCATGcc > 1:364566/1‑143 (MQ=255) gACAAATCCATACAGAATAACGCCGGCCCAGACGCATTGCACGTTCTGCTGCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGc < 2:263400/149‑1 (MQ=255) tCCATACAGATTAAGTCCGGCCCAGACGCATTTCACATTATGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCTCAGTTGCGGCAGa < 2:451245/149‑1 (MQ=255) tCCATACAGATTAACTCCGGCCCAGACGCATTTCCCGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGa < 2:92842/149‑1 (MQ=255) tCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGa < 2:92834/149‑1 (MQ=255) ccgtACCGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTAAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCg < 1:548185/140‑1 (MQ=255) cATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCgg < 1:270144/143‑1 (MQ=255) aTACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTAAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGc > 1:326620/1‑143 (MQ=255) tACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGGCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCa > 1:218955/1‑143 (MQ=255) tCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCAcagc > 1:512422/1‑143 (MQ=255) tCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGa < 2:475822/149‑1 (MQ=255) tCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTAAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAACAGCGGa > 2:260650/1‑149 (MQ=255) tttCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAg < 1:153407/143‑1 (MQ=255) gTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAgg < 2:262335/149‑1 (MQ=255) ttCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAGGc < 1:58255/143‑1 (MQ=255) ttAGAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAGGCTGAACTCATCg < 2:413932/149‑1 (MQ=255) ttAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAGGCTGAACTCATCg < 2:414725/149‑1 (MQ=255) aaaGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCCTTTCTCGCCGCAGCAGCGGAGCAAGATAGCAATCGACCAGGCTGAACTCaacccg > 2:18694/1‑144 (MQ=255) gTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGAAGCGGATTAAGATAGCAATCGACCAGGCTGAACTCATCGCTCAGGAAGTACGGCTTCt < 2:338158/149‑1 (MQ=255) cTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAGGCTGAACTCATCGCTCAGGAAGTACGGCTTCTGACCGa < 2:229591/149‑1 (MQ=255) | GTTATCCAGCAACCACTCATAGAATGCACGCAGCAGATAGGGACGACGTGGTGTTAGCTGTGACAAATCCATACAGATTAACTCCGGCCCAGACGCATTTCACGTTCTGCTTCAGTTAAAGAAGCAAGGAAAGAGTCACGCTCAAAGACGCGGGTCATATAGCCTTTCAGCTCTTTCGCACCCGGGCCGCTGAACTCGATGCCCAGTTGCGGCAGACGCCACAGCAGCGGAGCAAGATAGCAATCGACCAGGCTGAACTCATCGCTCAGGAAGTACGGCTTCTGACCGA > CP009273/3370064‑3370352 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |