| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 5,336,743 | Δ1 bp | 7.5% | coding (193/1443 nt) | PP_4696 → | nitrogen regulation protein NR(I) |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 5,336,743 | 0 | A | . | 7.5% | 158.8 / 7.6 | 53 | coding (193/1443 nt) | PP_4696 | nitrogen regulation protein NR(I) |
| Reads supporting (aligned to +/- strand): ref base A (24/25); new base . (2/2); total (26/27) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.47e-01 | |||||||||||
CCCTGCGTCGCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTGCAGGCAGTAGCGCGTATTCT > NC_002947/5336597‑5336888 | cccTGCGTCGCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTTCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAg < 7:72931/149‑1 (MQ=255) cGTCGCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCg < 2:308593/148‑1 (MQ=255) gTCGCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGCTTGATC‑AGCTCggt < 2:242809/149‑2 (MQ=255) tCGCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGcc < 4:152105/149‑1 (MQ=255) gCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCa < 5:339457/148‑1 (MQ=255) gAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑ccc < 4:40762/148‑1 (MQ=255) aaCCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCt < 2:325431/149‑1 (MQ=255) ccAGTACCAGGTCAGCGAGGCCGGCTCGGAGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGc < 4:46187/146‑1 (MQ=255) aGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCGGGGTGccctgg < 7:194607/149‑6 (MQ=255) gTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCa > 2:34770/1‑149 (MQ=255) cAGGTCAGCGAGGCCGGCTCGTTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTAGACATCATCGTCAGCGACATGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGATCGGACAGGGCA‑CCCCGGGGCTGAGCAttcc > 8:221398/1‑146 (MQ=255) cAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGAc > 6:93242/1‑149 (MQ=255) cAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCGCGGACAGGGCA‑ACCCGGTGCTGATCATGAc > 8:219610/1‑149 (MQ=255) cAGGTCAGCGAGGCCGGCGCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGa < 3:42875/148‑1 (MQ=255) cAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGCTTGATC‑AGCTCgg > 2:173841/1‑117 (MQ=255) gCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTACCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCCAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAATTACCCCac > 8:52848/1‑148 (MQ=255) ggCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGTCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCt > 7:306799/1‑149 (MQ=255) ggTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTg > 3:219225/1‑118 (MQ=255) ggTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTg < 4:219225/118‑1 (MQ=255) gatctgCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGc < 3:207742/143‑1 (MQ=255) ggAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCgg < 1:34770/149‑1 (MQ=255) gAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGt < 7:221398/149‑1 (MQ=255) gAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGt < 7:219610/149‑1 (MQ=255) aaGCCCAGGAACGCTTCAGCATTGCCACTTTCGCCCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTg < 6:207887/149‑1 (MQ=255) cccAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGc > 4:207742/1‑142 (MQ=255) gCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGaa > 2:82121/1‑148 (MQ=255) cATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCACCCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGt < 1:252445/130‑1 (MQ=255) cATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCa < 3:253951/104‑1 (MQ=255) cATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCa > 4:253951/1‑104 (MQ=255) cATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGt > 2:252445/1‑129 (MQ=255) tggcACTTTCGACCTGATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCTGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGcgcg < 8:306799/145‑1 (MQ=255) ccACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTg > 3:99078/1‑149 (MQ=255) cACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTg > 1:142448/1‑148 (MQ=255) aCTTTCGACCTCATCGTAAGCGACCTGCGCCTGCCCGGCGCGCCCGGGACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGa < 1:82121/149‑1 (MQ=255) ccTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCg > 6:53541/1‑149 (MQ=255) cTCATCGTCATCGTCCTGCGCCTGCCCGGCGCGCCCGGCACCTAGC‑TGATCAAGCTCGGCAAGGGCA‑CCCCGTTGTTGATCATGACCAGTTACGCCAGCTTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGc < 7:52848/149‑1 (MQ=255) tCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGc > 2:110525/1‑148 (MQ=255) attgTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGa > 4:311752/4‑121 (MQ=255) attgTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGa < 3:311752/118‑1 (MQ=255) tCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGc > 8:294448/1‑88 (MQ=255) tCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGc < 7:294448/88‑1 (MQ=255) gCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTc > 8:104544/1‑149 (MQ=255) cTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCacgac > 5:22274/1‑147 (MQ=255) ggCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGAtgct > 7:182008/1‑149 (MQ=255) gcgcgcCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGAtgctg > 1:122129/1‑149 (MQ=255) cgcgcCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCAGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGAtgctgc < 1:110525/149‑1 (MQ=255) cccGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTgcaggc < 5:93242/149‑1 (MQ=255) aCCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTGCAGGCAGTAgc > 5:18010/1‑149 (MQ=255) cGAGCTTGATC‑AGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACa > 7:221445/1‑104 (MQ=255) cGAGCTTGATC‑AGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACa < 8:221445/104‑1 (MQ=255) cGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTGCAGGCAGTAgcgc > 3:217325/1‑149 (MQ=255) gC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTGCAGGCAGTAGCGCGTa < 6:22274/149‑1 (MQ=255) aTCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTGCAGGCAGTAGCGCGTATTCt > 5:21601/1‑149 (MQ=255) | CCCTGCGTCGCCTGCTTGAGCGGAACCAGTACCAGGTCAGCGAGGCCGGCTCGGTGCAGGAAGCCCAGGAACGCTTCAGCATTGCCACTTTCGACCTCATCGTCAGCGACCTGCGCCTGCCCGGCGCGCCCGGCACCGAGC‑TGATCAAGCTCGGCCAGGGCA‑CCCCGGTGCTGATCATGACCAGTTACGCCAGCCTGCGCTCAGCGGTGGACTCGATGAAAATGGGCGCGGTGGACTACATCGCCAAGCCCTTCGACCACGACGAGATGCTGCAGGCAGTAGCGCGTATTCT > NC_002947/5336597‑5336888 |
| 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: ‑ |