| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 4,538,749 | 0 | A | T | 53.3% | 9.2 / 18.2 | 15 | Y42F (TAT→TTT) | fimH | type 1 fimbria D‑mannose specific adhesin FimH |
| Reads supporting (aligned to +/- strand): ref base A (1/6); new base T (8/0); total (9/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.40e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.29e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGCTGGTCGGTAAATGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAA > NZ_CP009273/4538664‑4538837 | ggCTGGTCGGTAAATGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTCATGTa < 1:11227/90‑1 (MQ=255) tGGTCGGTAAATGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTATTTAAAc > 2:153021/1‑90 (MQ=255) gTAAATGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGGGGCAGCGCCAAAGTTTTTTTAAAACTTtcg > 2:289901/1‑90 (MQ=255) aTGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTATGTAAACCTTGCGCCcg < 1:61713/90‑1 (MQ=255) tGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGGAGCGCCCAAGTTTTTTTAAAACTTGCGCCcgc > 1:305823/1‑89 (MQ=255) ggTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCCATGTTTTTGTAAACCTTTCGCCCGTCGTGa > 2:23450/1‑90 (MQ=255) ggTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCCAAGTTTTTGTTAACCCTTCGCCCCTCGTGa > 1:70827/1‑90 (MQ=255) ttCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAAAGTTTTTGTAAAACCTTCGCCCCTCGTGAAtgtg > 1:64638/1‑90 (MQ=255) ttCGCCTGAAAACCCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTATGTAAACCTTGCGCCCGTCGTGAAtgtg < 1:46068/90‑1 (MQ=255) cTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGGGGCAGCGCCAATGTTTTTGTAAAACTTTCGCCCGTCGGGAATGTgggggc > 2:229543/1‑88 (MQ=255) aaaCCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAAcc < 2:59875/90‑1 (MQ=255) tACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTTTGTAAACCTTGCGCCCGTCGTGAATGTGGGGGAAAAACTGGGCGTGGGTCt > 2:251832/1‑90 (MQ=255) cccTATTGGCGGTGGCAGCGCCAAAGTTTTTGTAAAACTTGCGCCCCCCGTGAATGTGGGGCAAAACCTGGGCGGGGATCTTTTGACGCa > 1:297174/1‑90 (MQ=255) tttATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCgg < 1:157578/90‑1 (MQ=255) tATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGaa < 2:193578/90‑1 (MQ=255) | GGCTGGTCGGTAAATGCCTGGTCATTCGCCTGTAAAACCGCCAATGGTACCGCTATCCCTATTGGCGGTGGCAGCGCCAATGTTTATGTAAACCTTGCGCCCGTCGTGAATGTGGGGCAAAACCTGGTCGTGGATCTTTCGACGCAAATCTTTTGCCATAACGATTATCCGGAA > NZ_CP009273/4538664‑4538837 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |