| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913_3_pae_pgi | 964,150 | 0 | T | A | 26.3% | 27.6 / 11.4 | 19 | intergenic (+38/‑170) | ihfB/ycaI | integration host factor (IHF), DNA‑binding protein, beta subunit/ComEC family inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (6/8); new base A (3/2); total (9/10) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.28e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.80e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TACCGGACGTAATCCGAAGACTGGCGATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACGCAAAATTCCCACCAGACAACCGCTCAACAAAG > NC_000913_3_pae_pgi/964004‑964288 | tACCGGACGTAATCCGAAGACTGGCGATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCg > 1:394999/1‑149 (MQ=255) cGTAATCCGAAGACTTGCAATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCCGACAGGTGCtt < 2:303471/149‑1 (MQ=255) aaGACTGGCGATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCAttt < 2:145796/149‑1 (MQ=255) cTGGCGATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTACGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGCGCTTTTTTCATTTctct > 2:416656/1‑149 (MQ=255) gATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCCGACAGGTGCttttc > 2:251806/1‑133 (MQ=255) gATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCCGACAGGTGCttttc < 1:251806/134‑2 (MQ=255) tGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTATTCTGGAACTGGAAGCt > 1:130144/1‑149 (MQ=255) tGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCt < 1:364872/149‑1 (MQ=255) aaggaaAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAACCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGcc > 2:217632/1‑149 (MQ=255) gacaagaCGTACCGCACTTTAAACCTGGTACAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGACAAGCACCTGTCGGGTGCTGTTGTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCg < 1:16697/143‑1 (MQ=255) cACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACa < 1:458386/149‑1 (MQ=255) aCCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCAc < 1:146227/149‑1 (MQ=255) aTCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTg > 1:167614/1‑149 (MQ=255) gTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACg > 1:172661/1‑149 (MQ=255) gTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACGCaaaa < 1:296734/149‑1 (MQ=255) aCTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAACTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACGCAAAATTCccac < 1:18359/149‑1 (MQ=255) cTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACGCAAAATTCCCACCAGACaa < 2:167614/149‑1 (MQ=255) tgaaaaaaGCACCCGACAGGTGCTTTTATCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGGACGCAAAATTCCCACCAGACAACCGCTcaa > 2:469217/5‑149 (MQ=255) aaaGCACCCGACAGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACGCAAAATTCCCACCAGACAACCGCTCAACAAAg > 2:137090/1‑149 (MQ=255) | TACCGGACGTAATCCGAAGACTGGCGATAAAGTAGAACTGGAAGGAAAATACGTTCCTCACTTTAAACCTGGTAAAGAACTGCGCGATCGCGCCAATATTTACGGTTAAGTTTTTTACTCAAACTTGAACGAGAGAAAAGCACCTGTCGGGTGCTTTTTTCATTTCTCTAATCTGGAACTGGAAGCTGCCTCGCAGAGTTTTGAACAGTTTTCACCCTTTCGTTAAATTCTTCTGAATATGCCTCGGGGAACGCAAAATTCCCACCAGACAACCGCTCAACAAAG > NC_000913_3_pae_pgi/964004‑964288 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |