| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 60.7% | 3.6 / 29.9 | 28 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (9/2); new base A (0/17); total (9/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.96e-06 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.55e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGC > NZ_CP009273/353515‑353678 | tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACaaa > 2:520213/1‑90 (MQ=255)tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACaaa > 2:1150668/1‑90 (MQ=255) cGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAAccg > 1:556046/1‑90 (MQ=255) tccAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAAccgc > 1:576140/2‑90 (MQ=255) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGTTTTTTTC‑CCGCCGCAAAAAAACCGCCGTtc < 2:777709/87‑1 (MQ=21) cacccGCGCATTTACCCACCCCCATGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTT‑CCGCCGCAAAAAAACCGCCGTtc < 2:348144/87‑1 (MQ=21) cacccGCGCATTTACCCAACGCCATGTGAAAAAATGCCTCCGGGGCGGCTTTCTCCCAGCTATTTTC‑CCGCCGCAACAAAACCGCCGTtc < 2:737480/87‑1 (MQ=255) cacccGCGATTTTACCCAACGCCATGTGAAAAAATGCCTTCGGGGGGGCTGTCGGCCAGTTTTTTTC‑CCGCCGCAAAAAAACCGCCGTtc < 2:1350686/87‑1 (MQ=16) cacccGCCCTTTTACCCACCGCCTTGTGAAAAAATGCCTTCGCGGCGGCTGTCTGCCAGTTTTTTTT‑CCGCCGCAAAAAAACCGCCGTtc < 2:427426/87‑1 (MQ=21) cgcgCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTtctctc > 2:774029/1‑90 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTTCTCTcc > 2:414225/1‑90 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCGTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTTCTCTcc > 1:1222130/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:1119716/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 2:924048/1‑90 (MQ=255) cccttgtgAAAAAATGCCTCCGGGGCGGCTGTCTGCCAGCTTTTTTC‑CCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 2:576140/86‑1 (MQ=37) aaaaaTGCCTTCGGGGGGGGTTTCCGGCCGTTTTTTTTCCCGCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:280030/90‑1 (MQ=255) aaaaaTCCCTTCGGGGCGGCTGTCTGCCAGCTTTTTTC‑CCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:556046/90‑1 (MQ=255) aaaaaTCCCTCGGGGGCGCTTGCCTGCCATTTTTTTTC‑CCCCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:325508/90‑1 (MQ=255) aaaaaTCCCTCCGGGGCGGCTGTCTGCCATTTTTTTTC‑CCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:269715/90‑1 (MQ=255) cTTCGGGGCGGCTGCCTCCCATTTTTTTTC‑CCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:88784/90‑1 (MQ=255) cggcggggGTTGTCTGCCAGTTTTTTTC‑CCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:275840/88‑1 (MQ=255) ggggcTGTCTCCCAGCTTTTTTC‑CCCCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:554995/88‑1 (MQ=255) gcggcTGTCTCCCAGTTTTTTTC‑CCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:571073/90‑1 (MQ=255) tttttttc‑CCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:82554/87‑1 (MQ=255) tttttc‑CCGCCCAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:488241/89‑1 (MQ=255) tttttc‑CCGCCAAAACAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:721394/89‑1 (MQ=255) tttc‑CCCCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:1029193/90‑1 (MQ=255) ttcccgccgCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgc < 2:542235/87‑1 (MQ=255) | TTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTT‑CCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGC > NZ_CP009273/353515‑353678 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |