| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 1,703,279 | G→A | 20.4% | intergenic (+128/‑39) | lysS → / → PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 1,703,279 | 0 | G | A | 20.4% | 76.2 / 13.7 | 39 | intergenic (+128/‑39) | lysS/PP_1497 | lysine‑‑tRNA ligase/TetR family transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (14/17); new base A (5/3); total (19/20) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.51e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01 | |||||||||||
TGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCGCAAGACTGCCCGCCAAGGCAGCGAA > NC_002947/1703135‑1703419 | tGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGcc > 1:77665/1‑149 (MQ=255) gTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAAACCCCTCCAAAAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCac > 8:125712/1‑147 (MQ=255) cGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCAc < 6:140132/148‑1 (MQ=255) ggCCTGAGGGAGCTGAACGCGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTCAAGCTTTATGTGGTCAGTACCGGCCTCTTCGCGGTTAAACCCGCTCCTACAACGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACg < 2:39338/149‑1 (MQ=37) agtgagCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑accc > 2:165695/1‑147 (MQ=255) gcgccgtttCGTGGGGGTTTTTTCTTCCCTCATGTTTTTTGTTGGCGGTACGGCCCTCTGCGGGGTTAACCCCGCTCCTACAACGGCCTTGTTGGCGGGGGTTTACCCGCGAAGGGGCCAGCACTGa < 4:156743/121‑1 (MQ=255) gccgccTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCGGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTTACCGCGAAGGGGCCAGCACAGa > 3:156743/1‑127 (MQ=255) tctaGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGCCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGt < 7:125712/144‑1 (MQ=255) gcTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCCCACCTACAAAAGCCGTGTAGGAGCGGGTTTACCCGCGAAGGGGCCACCACTGACGAA‑ACACCCCCAAGAGGTATACCCCCTGCCACCCGcc > 2:1447/1‑149 (MQ=37) aatcTTTATGTTGTATTTACCGGCCTCTTCGCGGGAAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGTTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAg < 7:197713/144‑1 (MQ=255) cTTTATTTTGTCATTACCGGCCTCTTCGGGGGTAAACCCGCTCCTACAAAGGCCTTTTAGGTTGGGGTTTACCCGCGAATGGGCCATCACTGAAGAATACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGgcg < 1:202904/148‑1 (MQ=37) cTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCCCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCCTGAGGTATCCCCCCTGCCCCCCCCCAAGCCTGACCAAGgcgca > 2:202904/1‑148 (MQ=37) tATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGcgccg < 5:111175/147‑1 (MQ=255) tgttgtCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTCGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGccgccg < 7:84547/148‑1 (MQ=255) cgGGTAAACCCGCTCCTAAAATGGCCTTGTAGGTGTGGGTTTACCCGCGAAGGGGCCATTACTGACGAA‑ACACCTCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGaaa < 1:83318/149‑1 (MQ=255) ggTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGc > 3:211560/1‑149 (MQ=255) aaaCCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTg < 1:162992/149‑1 (MQ=255) aaCCCGCTCCTACAACGGCCTTGTCGGTGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGc < 1:1447/149‑1 (MQ=255) aaCCCGCTCCTACAAAGGCCTTTTCGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGc < 1:165695/149‑1 (MQ=255) ccGCTCCTACAAGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCaa > 5:14481/1‑148 (MQ=255) ccGCTCCTACAAGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCaa > 1:252616/1‑148 (MQ=37) ccGCTCCTACAAGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCaa > 7:170885/1‑148 (MQ=37) gCTCCTACAAGGCATTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACTCACGAA‑ACACCCCCATGACGTATCCCCCGTGACACCCGCCATGCCAGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATAc > 7:132585/1‑149 (MQ=37) tCCTACAAGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGTACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCATTACAAAGCCCCCCCCGCCAACCCAACCCCCGACGCCCAAACCGTCCAATAca > 3:190114/1‑147 (MQ=12) cTACAAGGCCTTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAg < 6:14481/149‑1 (MQ=255) cAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGcc > 1:110710/1‑149 (MQ=255) aaaGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGc < 3:76203/83‑1 (MQ=255) aaaGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGc > 4:76203/1‑83 (MQ=255) aaaGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCg > 2:153215/1‑149 (MQ=255) aGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATc < 2:130897/109‑1 (MQ=255) aGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATc > 1:130897/1‑109 (MQ=255) ccTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCa < 5:63426/132‑1 (MQ=255) ccTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCa > 6:63426/1‑132 (MQ=255) tGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCGCAAGAc < 2:252616/147‑1 (MQ=255) gAGCGGGTTTACCCGCGAAGAGGCCGGTACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGa > 3:229904/1‑79 (MQ=37) gAGCGGGTTTACCCGCGAAGAGGCCGGTACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGa < 4:229904/79‑1 (MQ=37) aGCGGGTTTACCCGCGAAGAGGCCGGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCGCAAGACTGCCCGcc < 8:170885/149‑1 (MQ=255) cGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCGCAAGACTGCCCGCCaa < 4:211560/149‑1 (MQ=255) ccGCGAAGGGGCCAGCACTGCCGAA‑ACCCCCCCATGAGGTATCCCCCGTGCCCCCCGCCATGCCTGACCAAGGCGCCGCCGGCCTCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCGCAAGCCTGCCCGCCAAGGCCGCGaa > 3:59849/1‑149 (MQ=255) | TGCGTCCGCAGGCCTGAGTGAGCTGAACGAGCCGCCTTTCGAGGCGGCTTTTTCTTGCCTGAAGCTTTATGTTGTCAGTACCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGGCCTTGTAGGAGCGGGTTTACCCGCGAAGGGGCCAGCACTGACGAA‑ACACCCCCATGAGGTATCCCCCGTGACACCCGCCATGCCTGACCAAGGCGCCGCCGGCATCGCCACCGCCGTCGCCGAAAGCGTGCAATACCAAGGCCGCAAGACTGCCCGCCAAGGCAGCGAA > NC_002947/1703135‑1703419 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |