| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,241,903 | 0 | C | A | 44.0% | 38.9 / 14.1 | 25 | V37F (GTT→TTT) | lysP | lysine‑specific permease |
| Reads supporting (aligned to +/- strand): ref base C (11/3); new base A (0/11); total (11/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.16e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
AGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCT > NZ_CP009273/2241818‑2241985 | aGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACaaaa < 1:469414/90‑1 (MQ=255) aaGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGa > 1:169191/1‑90 (MQ=255) aCCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTa < 1:257537/90‑1 (MQ=255) aCCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTa < 1:596911/90‑1 (MQ=255) ggCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATgg > 1:60473/1‑90 (MQ=255) cAATCAGAATATACGAGAGCAACCCCCCCCCCGGCCCTGCCTGAAAAATCGTTGCCCCAGAGGAAAAAAAAAGCCCTGTCCCGAGGGAAc < 2:60473/90‑1 (MQ=255) aaTCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAAcc > 2:584808/1‑90 (MQ=255) ataGGAGAGCAACCCCCCGCCCGGCCCTGCCTGAAAAATCGTTGCGCCAGAGGAAAAAAAAAGCCCTGTACCGATGGAACCGCCAATGGc < 2:110892/90‑1 (MQ=255) acaCGAGACCAACCCCCCCCCCGCCCCTGCATGAAAACTCGTCGCGCAAGAGGAAAAAAAAAGCCCTGTCCCGAGGGAACCGCCAATGGc < 2:525482/88‑1 (MQ=255) gagaGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAatc > 2:594568/1‑90 (MQ=255) gagCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAatcat > 1:110892/1‑90 (MQ=255) gagCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAatcat > 1:114093/1‑90 (MQ=255) gCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCg > 1:353071/1‑90 (MQ=255) agaaTCCCCCCCCCGGCCCTGCTTGAAAAATCGTTGCGCCAGGGGAAAAAAAAAGCCCTGTACCGATGGAACCGCCAATGGCAATCATCg < 1:652485/88‑1 (MQ=255) aaTGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCGTc > 1:104003/1‑90 (MQ=255) aTGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCGACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCa > 2:179205/1‑90 (MQ=255) cccgGCCCTCCCGGAAAAATCGTTGCGCCAGAGGCAAAAAAAAGCCCTGTCCCGATGAAACCGCCAATGGCAATCATCGTCAGGTGAcgc < 1:179205/90‑1 (MQ=255) ccgGCCCTGCCTGAAAAATCGTGGCGCAAGAGAAAAAAAAAAGCCCTTTCCCGATGGACCCGCCAATGGCAATCATCGTCAGGTGAcgcg < 2:509000/90‑1 (MQ=255) ccctgcctgAAAAATCGTCGCCCCAGAGAAAAAAAAAAGCCCTGCCCCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCtt < 2:613575/89‑1 (MQ=255) tCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTa > 1:300010/1‑90 (MQ=255) tCGTTGCCCAAGAGCAAAAAAAAAGCCCTGTCCCGAGGAAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTa < 2:104003/90‑1 (MQ=255) tGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGcc > 2:171802/1‑90 (MQ=255) ccAGAGGCAAAAAAAAGCCCTGTCCCGAGGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGgc < 1:242465/90‑1 (MQ=255) ccAGAGCAAAAAAAAAGCCCTGTCCCGAGGGACCCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGgc < 2:114093/90‑1 (MQ=255) gagGAAAAAAAAAGCCCTGTCCGGAGGGACCCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCt < 2:260469/90‑1 (MQ=255) | AGGAAGTAAACCATCAGGCCAATCAGCATATACGAGAGCAATGCCCCGCCCGGACCTGCCTGAGAAATCGTTGCGCCAGAGGCAACAAAAAGACCTGTACCGATGGAACCGCCAATGGCAATCATCGTCAGGTGACGCGCCTTTAATTCACGGCGTAAGCCCGGCGCT > NZ_CP009273/2241818‑2241985 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |