| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 1,558,378 | 0 | A | C | 64.3% | ‑0.8 / 10.4 | 15 | V538G (GTA→GGA) | dosP | oxygen‑sensing cyclic‑di‑GMP phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base A (3/2); new base C (0/9); total (3/12) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.75e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.61e-03 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACC‑ATTTCGTTCATCGCCGGGCTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGAGCAGTGG > NZ_CP009273/1558306‑1558462 | tGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACC‑ATTTCGTTCATCGcc > 1:82694/1‑90 (MQ=255) aaaCCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACC‑ATTTCGTTCATCGCCGGGc < 2:82694/90‑1 (MQ=255) tttCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACC‑ATTTCGTTCATCGCCGGGCTgaagaa < 2:311011/90‑1 (MQ=255) tATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAACCCAAACGCTCTTTTCCC‑ATTTCGTTCATCGCCGGGCTGAAGAACTGCCAGCCGt < 1:78202/90‑1 (MQ=255) tccctttttTCAGCGCCGCGCCTAAAACCAAACGCTCTTTTCCC‑TTTTGGTTCATCGCCGGGCTGAAGAACTGCCAGCCGTTACCGCCAt < 2:18285/87‑1 (MQ=255) gCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTCCC‑ATTTCGTTCATCGCCGGGCTGAAGAACTCCCAGCCGTTACCGCCATTc < 2:410379/90‑1 (MQ=255) ttttCAGCGCTGCCCCTAAAACCAACCGCTCTTCTCCC‑TTTTCGTTCACCGCGGGGCTGAAGAACTGCCAGCCGTTACCGCCATTCTTGc < 1:127694/89‑1 (MQ=255) tttCGGCGCGGCTCC‑AAAACCCAACGCTCTTTTTCCAATTTAATTCCACGGAGGCTTGAAGATCGGCCCGCTGTTACCGCCATTCTTGCg < 1:463106/90‑1 (MQ=255) gcgcTGCGCCTAAAACCAAACGCTCTTTTACC‑ATTTCGTTCATCGCCGGGCTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAatat > 1:398426/1‑90 (MQ=255) aCCAAACGCTTTTTTCCC‑ATTTCGTTCATCGCCGGGTTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCcattgcattg < 2:344989/90‑1 (MQ=255) aCCAAACGCTTTTTTCCC‑ATTTCGTTCATCGCCGGGCTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCcattgcattg < 2:344637/90‑1 (MQ=255) ccGCTTTTTTCCC‑TTTTCTTTCACCGCCGGGCTGAAGACCTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGAGc < 1:223703/89‑1 (MQ=255) aCGCTTTTTTCCC‑TTTTCGTTCACCGCGGGGGTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGAGc < 2:311514/90‑1 (MQ=255) ctctTTTACC‑ATTTCGTTCATCGCCGGGCTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGAGCAGt > 2:422833/1‑90 (MQ=255) tttttCCC‑ATTTCGTTCATCCCCGGGCTGAAAAACTCCCAGCCGTTCCCGCCATTCTTGCGAATATAATCCATTGCATTGTGAGCAGTgg < 2:412896/89‑1 (MQ=255) | TGGTAAACCAGTTTCAGTTGGTTATTGCTAATCGCTTCTTTCAGCGCTGCGCCTAAAACCAAACGCTCTTTTACC‑ATTTCGTTCATCGCCGGGCTGAAGAACTGCCAGCCGTTACCGCCATTCTTGCGAATATAATCCATTGCATTGTGAGCAGTGG > NZ_CP009273/1558306‑1558462 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |