| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 4,287,719 | 0 | T | A | 21.4% | 140.5 / 15.9 | 56 | intergenic (‑348/‑45) | acs/nrfA | acetyl‑CoA synthetase (AMP‑forming)/cytochrome c552 nitrite reductase |
| Reads supporting (aligned to +/- strand): ref base T (40/4); new base A (0/12); total (40/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.26e-09 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCTGCT > NC_000913/4287592‑4287856 | ctctAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCAt > 1:517586/1‑140 (MQ=255) tGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AAAAAAAACCGCCATTGcaacaa < 2:910801/140‑1 (MQ=255) gTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATg > 2:140028/1‑140 (MQ=255) gTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATg > 1:21928/1‑140 (MQ=255) gTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATg > 1:238443/1‑140 (MQ=255) cATGCATTTAAAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATGGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAAtt < 2:626731/140‑1 (MQ=255) gCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCgg > 1:228459/1‑140 (MQ=255) aCAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAg > 1:593502/1‑140 (MQ=255) aCAATTGATAAAAGAAAACATTCACGGGGTTGTTATTTGTAACACATAGGGGCGAGAAATGTAATGACGGTGTGGGTGCGGTTACTGTGGTAAAAAAC‑AAAAAAATCCGCCATTGCAACAATGGCGCAATTCGGATGAAg < 2:1072084/140‑1 (MQ=255) tGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTTATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCt > 1:397287/1‑140 (MQ=255) ttAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATg > 2:228432/1‑140 (MQ=255) aaaaACAACATTCACGGGGGGGTGATTTGTCACACAGGGGGGCCAGAAATGTCAAAAATTTGTAGGTTGGTTCGCGGGCTTAAAAAAC‑AAAGAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGAc < 2:427592/140‑1 (MQ=255) acaacaTTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAgg > 1:467103/1‑140 (MQ=255) tCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATaaaaa > 1:204863/1‑140 (MQ=255) caGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATaa > 1:972120/1‑140 (MQ=255) caGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATaa > 1:574471/1‑140 (MQ=255) caGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATaa > 1:189868/1‑140 (MQ=255) gtgGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAacgc > 1:1038871/1‑140 (MQ=255) tgGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAacgca > 2:660285/1‑140 (MQ=255) tgGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAacgca > 1:684328/1‑140 (MQ=255) tttttGTTACAAATAGGGGGGAGAAATGTCATGACGGTGTGGGTGCGTTTACGGTCGGAAAAAAC‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGcc < 1:178223/138‑1 (MQ=255) tttGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAGCAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGt > 1:607946/1‑140 (MQ=255) tGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTAt > 1:38934/1‑140 (MQ=255) tACACATGGGGGCGAGCAGTTTAATGACAGTGTAGGTGCGGTTCCTGCCGTAAAAAAA‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCtt < 1:140028/140‑1 (MQ=255) tACAAATGGGGGCGAGAAATTTCATGACAGTGAGGGGGGGGTTACTGTGGAAAAAAAA‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCtt < 2:972120/140‑1 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 2:639472/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 2:481090/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 2:787059/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 1:128282/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 1:771721/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 1:195443/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTAtt > 1:580555/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTAAGCTTAtt > 1:468851/1‑140 (MQ=255) gggCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGGATCTTCAGCTTAtt > 2:351954/1‑140 (MQ=255) cGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGAt > 2:983975/1‑140 (MQ=255) cGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGAt > 2:279558/1‑140 (MQ=255) aGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTc > 1:481114/1‑140 (MQ=255) gCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTcc > 2:974895/1‑140 (MQ=255) aaTGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCtt > 1:362938/1‑140 (MQ=255) aaTGTAATGACAGTGTGGGTGGGTTTACTGTCGAAAAAAAA‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCtt < 2:771721/140‑1 (MQ=255) tGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCtttt > 2:40328/1‑140 (MQ=255) taggACGGTGTAGGGGGGTTTACTGTCGAAAAAAAA‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttc < 1:631059/137‑1 (MQ=255) cAGTGTAGGTGGGGTTACTGTGGAAAAAAAA‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttcttttt < 2:362938/140‑1 (MQ=255) cAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttcttttt < 2:684328/140‑1 (MQ=255) aggtgtGGGTGCGTTTCCTGTCGTAAAAAAC‑AAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttcttttt < 1:46756/138‑1 (MQ=255) aaGTGTAGGTGCGTTTACTGCCGTAAAAAAA‑AAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTtttttcttttt < 2:397287/139‑1 (MQ=255) gtgtAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCa > 1:344414/1‑140 (MQ=255) tgtAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCAc > 2:808085/1‑140 (MQ=255) tgtAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCAc > 1:527539/1‑140 (MQ=255) tAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACtt > 2:477787/1‑140 (MQ=255) gggggTTCCTGTCGTAAAAAAA‑AAAAAAACCCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGt < 2:574471/137‑1 (MQ=255) gTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCAc > 1:814448/1‑140 (MQ=255) gTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCAc > 2:440253/1‑140 (MQ=255) gTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCAc > 1:784762/1‑140 (MQ=255) tGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGa > 2:653015/1‑140 (MQ=255) ggaaaaaaCAAAAAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACa < 2:607946/137‑1 (MQ=255) aaaaaC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAG‑CCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACgg < 2:228459/140‑1 (MQ=255) aaTAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGgctgct < 2:128282/140‑1 (MQ=255) | CTCTAAAGTGGTATTTTACATGCACTTACAATTGATTAAAGACAACATTCACAGTGTGGTTATTTGTTACACATAGGGGCGAGCAATGTCATGACAGTGTAGGTGCGGTTACTGTCGTGAAAAAC‑AATAAAAACCGCCATTGCAACAATGGCGCAATTCGGATGAAGCCCCTATGACAAGGATAAAAATAAACGCACGCCGTATCTTCAGCTTATTGATTCCTTTTTTCTTTTTCACTTCTGTTCACGCTGAACAAACGGCTGCT > NC_000913/4287592‑4287856 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |