| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 112,300 | 0 | A | C | 56.2% | ‑6.2 / 14.7 | 16 | G429G (GGT→GGG) | gspE | type II secretion system protein GspE |
| Reads supporting (aligned to +/- strand): ref base A (4/3); new base C (0/9); total (4/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.92e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
GGCATCCCCAGTACGCGGATTAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGA > NZ_CP009273/112214‑112384 | ggCACCCCCAGTCCGCGGATTAACTCTTAAAAGGTGTTTAAGCTTTGCTCTACGGCCAGGCGGCCGTTTTAAAAAAGCGTCCGCATAccc < 2:39575/90‑1 (MQ=255) cATCCCCAGTACGCGGATTAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGc > 1:243136/1‑90 (MQ=255) tAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTc > 1:5459/1‑90 (MQ=255) tctTAAAAGGTGGTAAAGCCTTGCTCTCCGGCCGGGCAGCCTTTTTAAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGc < 2:94672/90‑1 (MQ=255) ctTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGGAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCg > 2:292733/1‑90 (MQ=255) tggtTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTAAAAAAGCGTACCCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGt < 1:570426/90‑1 (MQ=255) gtttAACCTTTGCTCTACGGCCGGGCAGCCTTTTAAAAAAAGCGTCCGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTc < 2:542439/88‑1 (MQ=255) ggtTAACCCTTCCTCTCCGGCCGGGCGGCCTTTTAAAAAAAGCGTACGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTc < 2:548927/90‑1 (MQ=255) ggtAAAGCCTTCCTCTCCGGCCGGGCGGCCTTTTTAAAAAAGCGTCCGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTc < 2:395612/90‑1 (MQ=255) aGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTAt > 1:548927/1‑90 (MQ=255) ttGCTCTCCGCCCGGGCAGCCTTTTTAAAAAAGCGTCCGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGc < 2:5459/90‑1 (MQ=255) ttGCTCTCCGCCCGGCCGGCCTTTTTAAAAAAGCGTCCGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGc < 2:214672/90‑1 (MQ=255) cctctCCGGCCGGGCGGCCTTTTTAAAAAAGCGTACGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCgg < 2:229651/89‑1 (MQ=255) aCGGCCAGGCAGCCTTTTTAAAAAAGCGTACGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATa < 1:133059/90‑1 (MQ=255) ttaaaaaaGCGTACGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCgg < 1:292733/87‑1 (MQ=255) cGCATCCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGa < 1:80964/90‑1 (MQ=255) aCCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGc > 1:496325/1‑48 (MQ=255) | GGCATCCCCAGTACGCGGATTAACTCTTCAAAGGTGGTTAAGCCTTGCTCTACGGCCAGGCAGCCGTTTTCAAAAAGCGTACGCATACCCGCCTGTCGTGCGTGCGTTTCCAGCGATTCAACGTCGGTATTAGCGGAAATAAGCTGACGAATGACCGGCGTTATGGGCAGA > NZ_CP009273/112214‑112384 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |