| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 58.8% | ‑3.6 / 15.5 | 17 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (5/2); new base A (0/10); total (5/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.39e-03 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.79e-02 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTA > NZ_CP009273/353514‑353683 | aTTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa > 2:698880/1‑90 (MQ=255)aTTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa > 2:576405/1‑90 (MQ=255) ccGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAcc > 1:190578/1‑90 (MQ=255) cccAACACCCGCGCATTTACCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTTTTTTTCCGCCGCAACAAAAccgc < 1:285499/89‑1 (MQ=21) cacccGCCCATTTACCCAACCCCATGTGAAAAAATGCCTCCGCGGCGGCTGTCTGCCAGCTTTTTTCCCCCCGCAACAAAACCGCCGTtc < 1:523490/87‑1 (MQ=21) ccGCGCTTTTACCCACCCCCATGTGAAAAAATCCCTTCGGGGCGGCTGTCTCCAAGCTTTTTTCCCGCCGCAAAAAAACCGCCGTtctct < 1:481814/90‑1 (MQ=255) tttATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagtag > 2:523490/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCgggg > 1:222924/1‑90 (MQ=255) cttgtcCAAAAATGCCTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAag < 1:110838/88‑1 (MQ=255) aTGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAaga > 1:164596/1‑90 (MQ=255) aaaatTGCCTCCGGGGGGGTTTTCTGCCAGTTTTTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:5735/90‑1 (MQ=255) aaaatTCCCTCCGGGGGGGCTTTCGGCCAGTTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:764618/90‑1 (MQ=255) ccgcgGCGGCTGTCTCCCACTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:418388/89‑1 (MQ=255) gcggtTGTCTCCCATTTTTTTTCCCCCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:47962/90‑1 (MQ=255) gttGTCTGCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 1:261908/88‑1 (MQ=255) tttttcCCGCCAAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:596302/89‑1 (MQ=255) tttttcCCCCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:704716/89‑1 (MQ=255) tcccgccaAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgct < 2:105391/88‑1 (MQ=255) gccgcAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGAAAAAACTTTTAAACCCTCCTGTTTTGTGGGGATCGCTGCTggga > 1:186799/1‑88 (MQ=255) | ATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTA > NZ_CP009273/353514‑353683 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |