| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,606,478 | 0 | T | C | 60.0% | 8.0 / 16.5 | 15 | I407T (ATC→ACC) | hyfR | DNA‑binding transcriptional regulator HyfR |
| Reads supporting (aligned to +/- strand): ref base T (6/0); new base C (0/9); total (6/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.00e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.47e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CCAGAGCGATCCATCAACTT‑AGCCCGCGACGCGACAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGCGATTAATACCCATCGTGGTCGTTTT > NZ_CP009273/2606412‑2606563 | ccggagCGATCCA‑CAACTTGACCCCGCGCCGCGACAGGCCGCTGGTAAAAATCAACTGCGCTGCCACCCCCGCCAGTCTTCTGGAAAGTg < 1:251665/87‑1 (MQ=255) gacccaccaACTT‑CCCCCGCGCCGCGACAAGCCGCTGGTAAAAATCAACTGCGCTGCCACCCCCGCCAGTCTTCTGGAAAGTGAGTTAtt < 1:70820/87‑1 (MQ=255) gATCCATCAACTT‑AGCCCGCGACGCGACAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTAtt > 1:584746/1‑90 (MQ=255) aacAACTT‑GCCCCGCGCCGCAAAAAGCCGCTGGTAAAAACCAACTGCGCTGCCACCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTc < 1:44897/88‑1 (MQ=255) tt‑AGCCCGCGACGCGACAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGAcc > 2:985791/1‑89 (MQ=255) cgcggcgcaaCAAGCCGGTGAAAAAAACCAACCGCGCTCCCCCCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAgggg < 2:1077890/90‑1 (MQ=255) gcgacgcgacAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGc > 1:996329/1‑90 (MQ=255) cgacgcgacAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCg > 2:154481/1‑90 (MQ=255) cgacgcgacAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCg > 2:556495/1‑90 (MQ=255) ggCCGCTGAAAAAAATCACCCGCCCTGCCACCCCCGCCAGTCCTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTg < 2:797187/89‑1 (MQ=255) cccGCGGGTAAAAATCAACTGCGCTCCCACCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGc < 1:441297/89‑1 (MQ=255) aaaaaaCCACCTGCGCTGCCCCCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGCGATTAATa < 2:218254/88‑1 (MQ=255) aaCTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGCGATTAATACCCATCGt > 2:106329/1‑90 (MQ=255) gcgcTGCCACCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGCGATTAATACCCATCGTGGTc < 1:216629/90‑1 (MQ=255) cccACCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGCGATTAATACCCATCGTGGTCGtttt < 1:1150346/89‑1 (MQ=255) | CCAGAGCGATCCATCAACTT‑AGCCCGCGACGCGACAAGCCGCTGGTCAAAATCAACTGCGCTGCCATCCCCGCCAGTCTTCTGGAAAGTGAGTTATTCGGTCATGACAAAGGGGCGTTTACTGGTGCGATTAATACCCATCGTGGTCGTTTT > NZ_CP009273/2606412‑2606563 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |