| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,669,465 | 0 | C | A | 55.0% | 10.8 / 27.2 | 20 | L240F (TTG→TTT) | yphD | ABC transporter permease |
| Reads supporting (aligned to +/- strand): ref base C (7/2); new base A (0/11); total (7/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.64e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.51e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GCCGTACCGCCGACCACGACCGCGGCGATGACGTCAAACTCCAGACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCACCCGACGAACGTTGAT > NZ_CP009273/2669376‑2669536 | gCCGTCCCGCCGCCCACGCCCGCGGCGATGACGTCAAACTCCAGACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCcaac < 1:526739/90‑1 (MQ=255) cGACCGCGGCGATGACGTCAAACTCCAGACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCAccg > 1:395392/1‑90 (MQ=255) ccGCGGCGATGACGTCAAACTCCAGACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCAccgccg > 1:307287/1‑90 (MQ=255) gcggcgATGACGTCAAACTCCAGACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCt > 1:816321/1‑90 (MQ=255) cccAGCCCTTTTGCGGCCCCTGCGTTCCCAAACCCGAGGCGCGCCGCCAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 2:307287/89‑1 (MQ=255) cccAGCCCTTTTGCGCCCCCTGCTTTACCAGAACCGGGGCGCGCCGCCAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 1:194532/89‑1 (MQ=255) cccAGCCCTTTGGCGGCCCCTGCGTTACCAGACCCGGGGCGCGCCGCAAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 2:472140/89‑1 (MQ=255) cccAGCCCGTTTGCGGCACCTGCGTTCCCAGAACCGAGGCGCGCCGCAAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 2:28546/89‑1 (MQ=255) cccAGCCCGTTTGCGGCACCTGCGTTCCCAAAACCGAGGCGCGCCCCCAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 2:311806/89‑1 (MQ=255) cccAGCCCGTTTGCGCCCCCTGCTTTCCCAAACCCGGGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 2:529901/89‑1 (MQ=255) cccAGCCCGTTGGCGCCCCCGGCTTTCCCAGACCCGGGGCGCGCCGCCAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTa < 2:887602/89‑1 (MQ=255) agcccGTTGGCGGCCCCTGCTTTCCAAGAACCGAGGCGCGCCGCCAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAg < 2:658372/87‑1 (MQ=255) gACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGa > 2:156025/1‑90 (MQ=255) cGTTTGCGGCCCCTGCTTTCCCAAAACCGGGGCGCGCCGCAAAAAAAAGGCCGGTCCCCGCCGCTAATAATCCCGAAAGGGTAAAGATaa < 1:859486/90‑1 (MQ=255) tttGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGa > 2:569740/1‑90 (MQ=255) gggCCCCTGCTTTCCCAAAACGGGGGCGCCCCCCAAAAAAAATGCCGGTCCCCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATgc < 1:320067/89‑1 (MQ=255) ccTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCAcc > 1:168589/1‑90 (MQ=255) aGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCACCCGACGAACGtt > 2:213432/1‑90 (MQ=255) aacccGAGGCGCGCCGCCAAAAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCACCCGACGAACGTTg < 2:248852/87‑1 (MQ=255) aCCGGGGCGCGCCGCAAAAAAAACCCCGGCCCCCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCACCCGACGAACGTTGAt < 1:152789/90‑1 (MQ=255) aCCGAGGCGCCCCCCAAAAAAAATGCCGGTCCCCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCACCCGACGAACGTTGAt < 2:788170/90‑1 (MQ=255) | GCCGTACCGCCGACCACGACCGCGGCGATGACGTCAAACTCCAGACCGTTTGCGGCACCTGCGTTACCAGAACCGAGGCGCGCCGCCAACAAAATGCCGGTCACCGCCGCTAATAATCCCGAAAGGGTAAAGATAAGAATGCGCACCCGACGAACGTTGAT > NZ_CP009273/2669376‑2669536 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |