| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 3,218,704:1 | +C | 16.0% | intergenic (+44/+39) | oprJ → / ← nfxB | outer membrane protein OprJ/HTH‑type transcriptional regulator NfxB |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 3,218,704 | 1 | . | C | 16.0% | 72.6 / 12.5 | 25 | intergenic (+44/+39) | oprJ/nfxB | outer membrane protein OprJ/HTH‑type transcriptional regulator NfxB |
| Reads supporting (aligned to +/- strand): ref base . (16/5); new base C (2/2); total (18/7) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.48e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.72e-01 | |||||||||||
AAGCAGCCTTCATCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGCATCGACGATGCCGTA > NC_002947/3218569‑3218847 | aaGCAGCCTTCATCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGGCATCGAT‑CCCTggg < 1:69509/150‑1 (MQ=255) cTTCATCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGGCATCGAT‑CCCTggg < 1:485956/143‑1 (MQ=255) cTTCATCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGGCATCGAT‑CCCTggg > 2:485956/1‑143 (MQ=255) cTTCATCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGtttttt < 2:791713/150‑1 (MQ=255) aTCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGc > 1:267932/1‑150 (MQ=255) tCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGAGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGttttttt > 1:453820/1‑146 (MQ=255) tCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGAGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGttttttt < 2:453820/146‑1 (MQ=255) gAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTggg > 1:137613/1‑136 (MQ=255) gAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTggg < 2:137613/136‑1 (MQ=255) ccAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGt > 2:470391/1‑150 (MQ=255) aaCTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCagcgagc > 1:461280/1‑150 (MQ=255) tGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCggg > 2:4340/1‑150 (MQ=255) ttCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGa < 1:4340/150‑1 (MQ=255) aaaCAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTg > 2:742920/1‑150 (MQ=255) tttGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGccgcccgccc > 2:474448/1‑150 (MQ=255) ttggCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGcgtc > 1:750138/1‑150 (MQ=255) ttggCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGcgtc > 1:490365/1‑150 (MQ=255) ttGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGTGGGTGCCGCAGCACCGTCGAGGAAAagcag > 1:644934/1‑101 (MQ=255) ttGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGTGGGTGCCGCAGCACCGTCGAGGAAAagcag < 2:644934/101‑1 (MQ=255) gTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGc > 1:353465/1‑150 (MQ=255) tCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGCa > 1:206737/1‑150 (MQ=255) cAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGCATc > 1:689323/1‑150 (MQ=255) aGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGCATcg > 2:501527/1‑150 (MQ=255) cccAGGGCATCGAT‑CCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGCATCGACGATGCCGTa > 2:741296/1‑150 (MQ=255) ccaaGGG‑ATCGATGCCCTGGGGGTTTTATGACTGGTCCAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTTGGGGAAAAGCTGCTCCAGCGTTTGCCCGGATGTCGCGCTGGCCGGCCGACCGCGTCGTTCGACATCGACGTCGCCGTa > 2:267722/4‑150 (MQ=255) | AAGCAGCCTTCATCGAAGCCAGTACCCAGCGACAACTGGCGTTGGTCAACCTGTTCCGCGCACTCGGCGGCGGCTGGCCGAGCAAGGGCTGAAACAGCCTCCTTTGGTTGGCTTGTCCAGCCACTTGGCCCCAGGG‑ATCGATGCCCTGGGGTTTTTTTGGCTGGTGAAGGCAGGTCAGCGAGCGGGTGCCGCAGCACCGTCGAGGAAAAGCAGCTCCAGCGTTTGCACGGACGTCGCGCTGGCCGCCCGCCCGCGTCGTTCGGCATCGACGATGCCGTA > NC_002947/3218569‑3218847 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |