Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 492,533 | C→T | 8.9% | intergenic (‑113/‑18) | lptD ← / → PP_0405 | LPS‑assembly protein LptD/hypothetical protein |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 492,533 | 0 | C | T | 8.9% | 152.1 / 5.0 | 56 | intergenic (‑113/‑18) | lptD/PP_0405 | LPS‑assembly protein LptD/hypothetical protein |
Reads supporting (aligned to +/- strand): ref base C (26/25); new base T (3/2); total (29/27) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.04e-01 |
AAACTTTCTACGAAACGCGGGGGATTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCCAGCAGCGACGC > NC_002947/492385‑492678 | aaaCTTTCTACGAAACGCGGGGGATTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAGGCATTACCCGCTTGACGGCTAGTGc > 7:336645/1‑149 (MQ=255) cGAAACGCGGGGGATTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGgag < 8:94813/147‑1 (MQ=255) aaggcgGGGGTTTTTAATGCGATCTTATTAGTCCGGGCTTCCTGGGTGCCATCTGCCCGCGTGTGGGGGGGCACGCGTCTCGATGGTATGAAAAAGATGCTGGATAATAAGGCATGACGCGCTTGACGGCTAGGGCCGTCGGAGAccc < 8:336645/145‑1 (MQ=255) gggggATTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCaa > 1:317057/1‑149 (MQ=255) gggATTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATg > 1:11884/1‑149 (MQ=255) aTTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCt < 1:337787/149‑1 (MQ=255) aaTGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAaca > 8:207905/1‑149 (MQ=255) aaTGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAaca > 7:199379/1‑149 (MQ=255) tGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACg < 2:348957/149‑1 (MQ=255) ccATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGAt < 1:264205/149‑1 (MQ=255) ccATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGAt < 2:11884/149‑1 (MQ=255) ttattaGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGAt > 8:263849/1‑144 (MQ=255) ttattaGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGAt < 7:263849/144‑1 (MQ=255) tattaGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTAGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGc > 5:179876/1‑149 (MQ=255) attaGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGTCGTCGGAGACGCTTGCAATGCCTGAACACGATGTACGcc > 1:326279/1‑149 (MQ=255) attaGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGTCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGcc > 5:334806/1‑149 (MQ=255) attaGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGc < 4:177572/148‑1 (MQ=255) tCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGcaa > 7:87109/1‑149 (MQ=255) gggCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGcaaca > 2:28973/1‑148 (MQ=255) ccTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCt > 4:352016/1‑136 (MQ=255) ccTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCt < 3:352016/136‑1 (MQ=255) cGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGTATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCt < 3:268062/149‑1 (MQ=255) cGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGt < 1:28973/147‑1 (MQ=255) ccATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCt < 4:277959/128‑1 (MQ=255) ccATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGc < 2:317057/148‑1 (MQ=255) ccATCTGCACGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCt > 3:277959/1‑128 (MQ=255) aTCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTc > 2:103324/1‑148 (MQ=255) ccGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGa > 8:146068/1‑131 (MQ=255) ccGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGa < 7:146068/131‑1 (MQ=255) gggCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAAt < 8:87109/148‑1 (MQ=255) ggCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGTCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGa > 6:113171/1‑149 (MQ=255) aCGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCtttt > 3:198973/1‑149 (MQ=255) ctctCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGTCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGt < 5:113171/149‑1 (MQ=255) ctctCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGt > 6:312179/1‑149 (MQ=255) gATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACaa > 2:96783/1‑149 (MQ=255) gATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACaa > 2:137331/1‑149 (MQ=255) aTGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAAc > 2:224111/1‑149 (MQ=255) tGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGTCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTgg < 6:334806/149‑1 (MQ=255) aaGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGc > 2:57496/1‑147 (MQ=255) aGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAg < 1:137331/149‑1 (MQ=255) gATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTg < 2:77116/148‑1 (MQ=255) ataaAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTgcagg > 3:69622/1‑148 (MQ=255) aaGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGc < 7:149819/149‑1 (MQ=255) aaGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTCCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGc < 5:312179/149‑1 (MQ=255) gACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGAcc > 1:18422/1‑149 (MQ=255) ccGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCt > 4:285138/1‑91 (MQ=255) ccGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCt < 3:285138/91‑1 (MQ=255) cTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGc < 7:178198/126‑1 (MQ=255) cTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGc > 8:178198/1‑126 (MQ=255) gACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCcag < 6:179876/148‑1 (MQ=255) gCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTc > 2:148327/1‑94 (MQ=255) gCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTc < 1:148327/94‑1 (MQ=255) gCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCCagcagc > 8:67944/1‑148 (MQ=255) cTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAAAGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCCAGCAGCGa < 2:89284/149‑1 (MQ=255) ggCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGAc < 7:168894/130‑1 (MQ=255) ggCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGAc > 8:168894/1‑130 (MQ=255) gCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCCAGCAGCGACGc > 3:127334/1‑147 (MQ=255) ccGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCcagc > 7:328673/1‑138 (MQ=255) ccGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCcagc < 8:328673/138‑1 (MQ=255) | AAACTTTCTACGAAACGCGGGGGATTTCAATGCCATCTTATTAGTCCGGGCTTCCTGCGTGCCATCTGCCCGCGTGTGGGGCCGCACGCCTCTCGATGGTCTGAAAAAGATGCTGGATAATAAAGCATGACCCGCTTGACGGCTAGGGCCGTCGGAGACCCTTGCAATGCCTGAACACGATGTACGCCTGCAACAACTGACGGTCTGGCTCGATGAGCAGCTCAATGATCTTTTCCGTGACAACGCCTGGGGCGAGGTGCCTGCAGGCAGCCTGACCGCTGCCAGCAGCGACGC > NC_002947/492385‑492678 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |