| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 3,378,108:1 | +C | 45.5% | coding (47/471 nt) | argR → | l‑arginine‑responsive arginine metabolism regulon transcriptional regulator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 3,378,107 | 1 | . | C | 45.5% | ‑4.6 / 46.8 | 22 | coding (46/471 nt) | argR | l‑arginine‑responsive arginine metabolism regulon transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base . (9/3); new base C (4/6); total (13/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.92e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CATTATTTCAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGTTTGGTGCTGTACGTACACGCAATGCCA > CP009273/3377970‑3378245 | cATTATTTCAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTGAAGCATTTAAAG‑CATTACTTaaa > 1:158516/1‑149 (MQ=255) ttattTCAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTGTCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACt > 2:182880/1‑144 (MQ=255) ttattTCAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGTCTTATGCGAAGCTCGGCTGAGCAAGAAGAACTAGTTAAAGCATTTGAGGCCATTACt > 2:132325/1‑144 (MQ=255) ttattTCAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAaaga > 1:62775/1‑149 (MQ=255) ttgcAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAagaaga < 1:177699/146‑1 (MQ=255) aGGGCTTACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTa < 2:290941/144‑1 (MQ=255) ggCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTAGc > 2:329700/1‑144 (MQ=255) aTAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACGAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTcgc > 1:93638/1‑149 (MQ=255) aTTCATCTGTATGCACAATAATGATGTATCAACCACCATATCGGGTGCCTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGACAAATTTAGCTCCCAGAGCGAAATCGTCGCCGCGtt > 1:222132/1‑149 (MQ=255) ttCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTcgccg > 2:70610/1‑144 (MQ=255) tGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGCGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCGGGAGCAAg > 1:127971/1‑149 (MQ=255) aatGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGa < 1:296579/149‑1 (MQ=255) tgtATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGa < 2:318705/144‑1 (MQ=255) tATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGGAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCCGGGCACATACGTTGCCTCGTTGCAGGAGCAAGGCTTTGACAATATTa > 1:207840/1‑149 (MQ=255) aTCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTa < 1:189721/149‑1 (MQ=255) atatCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTaa < 1:197850/149‑1 (MQ=255) ggTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAGCCATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGtctc > 1:174986/1‑149 (MQ=255) aCTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGtctc > 2:222649/1‑144 (MQ=255) tGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTg < 1:3153/149‑1 (MQ=255) aaGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGtt < 2:219678/144‑1 (MQ=255) gCAAGAAGAACTAGTTAAAGCATTTAATGCCATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGTTTGGTGCt < 1:277600/149‑1 (MQ=255) gTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGTTTGGTGCTGTACGTACACGCaa > 1:160098/1‑149 (MQ=255) aaagcatttaaagccatTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTAGAACTATTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGTTTGGTGCTGTACGTACACGCAATg < 1:389454/149‑1 (MQ=255) gcatttaaagccatTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGTTTGGTGCTGTACGTACACGCAATGCCa < 1:365931/149‑1 (MQ=255) tttaaag‑cattACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGGTTGGTGCTGTACGTACACGCAATGcc > 2:208181/1‑144 (MQ=255) tttaaag‑cattACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGAGGATGTTGACCCAGTTTGATGCTGTACGTACACGCAGTGcc > 2:335238/1‑144 (MQ=255) | CATTATTTCAGCCTTCTTCAGGGCTGACTGTTTGCATAAAAATTCATCTGTATGCACAATAATGTTGTATCAACCACCATATCGGGTGACTTATGCGAAGCTCGGCTAAGCAAGAAGAACTAGTTAAAGCATTTAAAG‑CATTACTTAAAGAAGAGAAATTTAGCTCCCAGGGCGAAATCGTCGCCGCGTTGCAGGAGCAAGGCTTTGACAATATTAATCAGTCTAAAGTCTCGCGGATGTTGACCAAGTTTGGTGCTGTACGTACACGCAATGCCA > CP009273/3377970‑3378245 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |