| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 3,462,844 | (G)6→7 | coding (501/588 nt) | gspJ → | Type II secretion system protein GspJ |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,462,838 | 1 | . | G | 90.0% | 160.5 / 9.7 | 50 | coding (495/588 nt) | gspJ | Type II secretion system protein GspJ |
| Reads supporting (aligned to +/- strand): ref base . (2/3); new base G (16/29); total (18/32) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
ACTTCTGTGGATGGCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑GGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCGCTGCTCATTGTACTCATGT > NC_000913/3462701‑3462969 | aCTTCTGTGGATGGCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑gg > 1:589537/1‑140 (MQ=255)aCTTCTGTGGATGGCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑gg < 1:370026/140‑1 (MQ=255) cTTCTGTGGATGGCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑ggg < 2:589537/140‑1 (MQ=255) aTGGCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACa > 2:473775/1‑140 (MQ=255) ggCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgc > 2:362742/1‑140 (MQ=255) ggCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgc < 1:618372/140‑1 (MQ=255) ggCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgc > 2:523770/1‑140 (MQ=255) gCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgcg < 1:473775/140‑1 (MQ=255) cAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgcgc > 2:411941/1‑140 (MQ=255) cAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgcgc > 2:581723/1‑140 (MQ=255) cAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAgcgc > 1:535237/1‑140 (MQ=255) cAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGGTACGTCTGCAGACTCACCAATA‑TGGGG‑GG‑G‑TTACAgcgc > 2:294430/1‑140 (MQ=255) gaaggaTCAACCCGCCCCGGCGTTGCTGGAACATGCCGATAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGt < 2:203222/140‑1 (MQ=255) gaaggaTCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGt < 1:581723/140‑1 (MQ=255) aaggaTCAACCCGCCAAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGtt < 2:381747/140‑1 (MQ=255) cAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCAt < 1:294430/140‑1 (MQ=255) cAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCAt < 1:601514/140‑1 (MQ=255) cAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCGTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACACCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCAt < 2:134417/140‑1 (MQ=255) cAACCCGCCCAGGCGATCCTGGTACATGTCGCGAGCTTTTTTCTGGAACGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCAt < 2:304118/140‑1 (MQ=255) cGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCt < 2:447349/140‑1 (MQ=255) ccAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAg < 2:158433/140‑1 (MQ=255) ggCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAg < 1:562785/140‑1 (MQ=255) tGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGc < 2:535237/140‑1 (MQ=255) cTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCga < 2:637529/140‑1 (MQ=255) ggAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCgaga < 1:411941/140‑1 (MQ=255) tGTCGAGAGCTTTCTTCTGTAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGAAATA‑T‑GGG‑GGTG‑TTACAGCGCCGTTTTGCATTACCTGAGCAGATAGCGAGAGAagag > 2:179981/1‑140 (MQ=255) tGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑GGG‑GG‑G‑GTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGt > 2:152078/1‑140 (MQ=255) cGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑GGG‑GG‑GATTACAGCGCCGTGTTGGATTACCTGAGCAGTTAGCGAGAGAAGAGTCg > 2:245721/1‑140 (MQ=255) agagCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGcc > 2:638547/1‑140 (MQ=255) ggAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGc > 1:426332/1‑126 (MQ=255) ggAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGc < 2:426332/126‑1 (MQ=255) aaaGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGc < 1:362742/140‑1 (MQ=255) aaGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGcc < 1:485571/140‑1 (MQ=255) aaGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGcc < 2:656179/140‑1 (MQ=255) aGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCg < 2:65469/140‑1 (MQ=255) gAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAAcc < 2:619036/140‑1 (MQ=255) gAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAAcc > 2:72954/1‑140 (MQ=255) aaaGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCa > 2:701652/1‑140 (MQ=255) aaGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCAt < 1:547398/140‑1 (MQ=255) tcAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACgcggc > 1:389241/1‑140 (MQ=255) cAGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACgcggcg < 2:385297/140‑1 (MQ=255) cAGTCACGTTACATCTGAAGACTCAGCAATA‑T‑GGGAGG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACgcggcg < 2:217644/140‑1 (MQ=255) aGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACgcggcgc > 1:720741/1‑139 (MQ=255) aGTCACGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGt > 1:143415/1‑140 (MQ=255) aCGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTcgcg < 1:106784/140‑1 (MQ=255) aCGTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTcgcg < 2:622261/140‑1 (MQ=255) gTTACATCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCgct < 1:523770/140‑1 (MQ=255) tACATCTGCAGACTCAGCAATACG‑GGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCgctgc < 1:245721/140‑1 (MQ=255) tACATCTGCAGACTCAGCAATA‑T‑GGG‑GG‑GCTTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCgctgc < 1:270357/140‑1 (MQ=255) aTCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCGCTGCTCa < 1:179981/140‑1 (MQ=255) aTCTGCAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCGCTGCTCa < 1:122516/140‑1 (MQ=255) cAGACTCAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACgcggcg > 1:249933/1‑123 (MQ=255) cAGACACAGCAATA‑TGGGG‑GG‑G‑TTACAGCGCAGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACgcggcg < 2:249933/123‑1 (MQ=255) aGCAATA‑TGGGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCGCTGCTCATTGTACTCATGt > 1:138004/1‑140 (MQ=255) | ACTTCTGTGGATGGCAGGAAGGATCAACCCGCCCAGGCGATGCTGGAACATGTCGAGAGCTTTCTTCTGGAAAGTAACAGCGGGGAAAGCCAGGAACTTCCTCTCTCAGTCACGTTACATCTGCAGACTCAGCAATA‑T‑GGG‑GG‑G‑TTACAGCGCCGTTTTGCATTACCTGAGCAGTTAGCGAGAGAAGAGTCGCCAGCTCAGACGCAGGCCGGGAATAATAACCATGAATAATGAACAACGCGGCGTCGCGCTGCTCATTGTACTCATGT > NC_000913/3462701‑3462969 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |