| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,955,854 | 0 | T | G | 58.8% | 12.0 / 17.7 | 17 | S90S (TCA→TCC) | ppdC | prepilin‑type N‑terminal cleavage/methylation domain‑containing protein |
| Reads supporting (aligned to +/- strand): ref base T (1/6); new base G (10/0); total (11/6) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.66e-04 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.27e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TTGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGC > NZ_CP009273/2955765‑2955917 | ttGGAATGGTAGCCCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGt < 1:72411/90‑1 (MQ=255)ttGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGt > 2:60001/1‑90 (MQ=255) gACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGt < 2:114707/90‑1 (MQ=255) ttAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGc < 1:382492/90‑1 (MQ=255) aaCATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTg < 2:367233/90‑1 (MQ=255) aaCATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTg < 1:60001/90‑1 (MQ=255) tAGCGGCTCCTGACTACTGACGATTCGGGCAATGCGGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTGATGc > 1:50168/1‑90 (MQ=255) tAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCCTCTCTGCCCCCCGGGGGAACTAGCGTAACGCTGATGc > 1:317751/1‑90 (MQ=255) tAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCCCCTTCTCCGCCCCCGGGGGAAACAAGCGTGACGCCGATGc > 1:99809/1‑90 (MQ=255) tAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGGCATCTCCCCCTCTCTGCCCCCCGGGGAAACTAGCGTAACGCTGATGc > 1:404254/1‑90 (MQ=255) aGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCCGGGGAAAATAGCGGAACGCTGATggt > 1:84573/1‑88 (MQ=255) tCCTGACTACTGACGATTCGGGCAATGCAGGCGGGGCATCTCGCCTTCTCTTCCCCCGGGGGAAACTAGCGTAACGCCGATGCTGAcaca > 1:242972/1‑90 (MQ=255) tCCTGACTACTGACGATTCGGGCAATGCAGGCGGGGCATCTCGCCTTCTCTTCCCCCCGGGGAAAAAAGCGGAACGCCGATGCTGAcaca > 1:476062/1‑90 (MQ=255) cTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATc < 1:468219/90‑1 (MQ=255) cGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGAt < 1:517473/90‑1 (MQ=255) gggCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGGGAAACTAGCGTAACGCTGGTGCTGACACATCCCGCCTGCGATGTCTGc > 1:248438/1‑90 (MQ=255) aTGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGGGAAACTAGCGGAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCg > 1:407937/1‑90 (MQ=255) gCGGGTCATCTCGCCTTCTCTGCCCCCGGGGGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGGTGTCTGCATTCGGTTGAc > 2:481704/1‑90 (MQ=255) gTCATCTCGCCTTCTCTGCCCCCGGGGGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGc > 1:198697/1‑90 (MQ=255) | TTGGAATGGTAGACCCTTAACATAGCGGCTCCTGACTACTGACGATTCGGGCAATGCAGGCGGGTCATCTCGCCTTCTCTGCCCCCGGGTGAAACTAGCGTAACGCTGATGCTGACACATCCCGCCTGCGATGTCTGCATTCGGTTGACCTGC > NZ_CP009273/2955765‑2955917 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |