| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,729,179 | 0 | T | C | 53.8% | 11.3 / 14.4 | 13 | S281P (TCG→CCG) | xylR | DNA‑binding transcriptional regulator XylR |
| Reads supporting (aligned to +/- strand): ref base T (4/2); new base C (0/7); total (4/9) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.10e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.56e-03 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATCGATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATG > NZ_CP009273/3729090‑3729266 | aTCGATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTAtcgct > 1:114036/1‑90 (MQ=255) gATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTAtcgctcgc < 1:51492/90‑1 (MQ=255) gATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTAtcgctcgc > 2:561621/1‑90 (MQ=255) gATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTAtcgctcgc < 1:103327/90‑1 (MQ=255) gATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTAtcgctcgc > 1:264026/1‑90 (MQ=255) ttaGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGAcc < 1:232854/90‑1 (MQ=255) ttaGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGAcc > 2:457368/1‑90 (MQ=255) aaaaaaaaaaTGCCGCTACAGCGATTTTTGGCCCCCCCGGTCCGCCTCATTGACCGGCCCTCAACAAATTATCGCCCGCTGCCCGATccc < 2:582647/90‑1 (MQ=255) aaaaaaCGCCGCTACAGCAATTTTTGGCCCCCCCAGTTCGCGTCATTGAACGGCGCACAAAATATTACCGCCCGCTGCCCGCCCccgccg < 2:147336/87‑1 (MQ=255) cTACAGGAATTTTTGCCCCCCCCGGTCCGCGTCATTGAACGGCTCCAAACAGTTTATCGCCCGATGCCCACCCCCGCCGTTATTCAGGcc < 2:184889/90‑1 (MQ=255) aCAGTGATTTTTGCCCCCACCAGTCCGCGTCATTGACCGGCCCTAAACATTTTCCCGCCCGCTGCCCGACCCCGCCGTTATTCAGGCCAt < 2:471494/90‑1 (MQ=255) ccattttcGGCCCCCCAAGTCCCCGTCTTTGACCGCCGCTCAACAATTTATCCCCCGCTGACCGACCCCGCCGTTATTCAGGCCATGCAt < 1:29966/86‑1 (MQ=255) cGAATTTTGGTCCCCCCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCAt < 1:254089/90‑1 (MQ=255) caccaGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATc > 2:402800/1‑90 (MQ=255) catttCGCGTAATGGACCGGCCCTAAACAGTTTACCCCCCGCTGCCCGACCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACg < 1:158157/87‑1 (MQ=255) ttCATAGAACGGCGCTCAACAGATTCTCGCCCGCTGCCCGCTCCCGCCGTTGTTCAGGCCATGCATTACATTCGTAATCACGCCTGTaaa < 2:65395/89‑1 (MQ=255) gcgcTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGt > 1:367983/1‑90 (MQ=255) gcgcTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGt > 1:218810/1‑90 (MQ=255) gctcgctGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATg > 2:112616/1‑90 (MQ=255) | ATCGATTATTAGATAAAGAAGAAATGCCGCTACAGCGAATTTTGGTCCCACCAGTTCGCGTCATTGAACGGCGCTCAACAGATTATCGCTCGCTGACCGATCCCGCCGTTATTCAGGCCATGCATTACATTCGTAATCACGCCTGTAAAGGGATTAAAGTGGATCAGGTACTGGATG > NZ_CP009273/3729090‑3729266 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |