Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 4,970,603 | T→C | 11.1% | intergenic (‑361/+33) | fliC ← / ← PP_4379 | flagellin/3‑oxoacyl‑ACP synthase |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 4,970,603 | 0 | T | C | 11.1% | 127.9 / 7.8 | 54 | intergenic (‑361/+33) | fliC/PP_4379 | flagellin/3‑oxoacyl‑ACP synthase |
Reads supporting (aligned to +/- strand): ref base T (23/25); new base C (3/3); total (26/28) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.57e-01 |
TCATCCCGTCGGTGGAGCGGGTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCTGCAGCAGCAGCGGAACACTG > NC_002947/4970455‑4970750 | tCATCCCGTCGGTGGAGCGGGTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGt > 2:76431/1‑149 (MQ=255) tCATCCCGTCGGTGGAGCGGGTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGt > 2:42940/1‑149 (MQ=255) aTCCCGTCGGTGGAGCGGGTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTg < 8:300458/148‑1 (MQ=255) aGCGGGTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCtt < 5:139280/149‑1 (MQ=255) gTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGCGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAgg < 3:261297/149‑1 (MQ=255) gAGGCTGCTAATACGTACACGCGACGGGTGGAACCGGCTTTGCCGGTGTTCGCGTGTGAACCCGCGCCTACAATGGGCTGCGTTAGGAAGAATCTTATTTTCGGCATAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAggg < 8:115477/148‑1 (MQ=255) aGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCCGGCGGCCACCGCCCGGCGCttttttttc < 7:266437/148‑6 (MQ=37) gaagaaGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTgg > 8:268331/1‑149 (MQ=255) agaagGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGTCGGGCGCTTTTAGGGGCTGACTGGGa < 1:193374/149‑1 (MQ=255) gagaCGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGt > 8:183888/1‑149 (MQ=255) cgcgATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTcgcg < 7:183888/149‑1 (MQ=255) gcgaacACCGGCAAAGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGa > 1:131661/6‑133 (MQ=39) gcgaacACCGGCAAAGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGa < 2:131661/128‑1 (MQ=39) aCCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGcc < 7:268331/149‑1 (MQ=255) ttGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGcccc > 8:66579/1‑149 (MQ=255) tgtTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAg < 7:135466/149‑1 (MQ=255) gcgGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGa > 4:52840/1‑108 (MQ=255) gcgGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGa < 3:52840/108‑1 (MQ=255) cccGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGc > 7:39845/1‑149 (MQ=255) gCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCAc > 2:9271/1‑149 (MQ=255) cTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTcgcg < 6:348532/101‑1 (MQ=255) tACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATc > 8:321708/1‑149 (MQ=255) tGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCAc < 4:162996/149‑1 (MQ=255) ggCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCAcgc > 2:330512/1‑149 (MQ=255) ggCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCAcgc < 7:66579/149‑1 (MQ=255) gCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCAcgcg > 6:143761/1‑149 (MQ=255) tGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCt > 8:294239/1‑149 (MQ=255) ttAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTc > 1:114272/1‑147 (MQ=255) gCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑g > 2:173409/1‑149 (MQ=255) cAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑Gc > 1:177728/1‑149 (MQ=255) aGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑Gc > 7:221598/1‑148 (MQ=255) cTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATc > 1:89945/1‑147 (MQ=255) ttATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑Gcc < 4:184117/143‑1 (MQ=255) ttATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑Gcc > 3:184117/1‑143 (MQ=255) ttttCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCAt > 4:109439/1‑149 (MQ=255) ggCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGCGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCt > 3:222769/1‑149 (MQ=255) ggCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGc < 5:224077/148‑1 (MQ=255) ggCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGc < 1:173409/148‑1 (MQ=255) gCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCtt < 1:9271/149‑1 (MQ=255) gCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCtt < 2:89945/149‑1 (MQ=255) gCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCt > 2:181552/1‑148 (MQ=255) aGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCGTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGCGCCCCACGACAGGCCCCCGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCt > 5:178098/1‑149 (MQ=255) aaaaaaaaGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTcg > 6:2063/1‑59 (MQ=255) aaaaaaaaGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTcg < 5:2063/59‑1 (MQ=255) cctaaaaGCGCCCGGCGGCCACCGCCCGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCTg > 6:113735/4‑147 (MQ=39) aaaaaaaGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCg > 2:204700/1‑133 (MQ=255) aaaaaaaGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCg < 1:204700/133‑1 (MQ=255) taaaaGCGCCCGGCGGCCACCGCCCGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCa < 3:182987/78‑1 (MQ=25) taaaaGCGCCCGGCGGCCACCGCCCGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCa > 4:182987/2‑79 (MQ=25) aaGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCTgcagcagc < 2:114272/149‑1 (MQ=255) aaGCGCCCGGCGGCCACCGCCCGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGc < 1:35299/137‑1 (MQ=255) aaGCGCCCGGCGGCCACCGCCCGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGc > 2:35299/1‑137 (MQ=255) gcCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCTGCAGCAGCAGCg < 1:76431/149‑1 (MQ=255) ccGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCTAGCCATCGAGCATGTGCTTCTGCAGCAGCAGCg < 1:42940/149‑1 (MQ=255) cGGTGGCCGCCGGGCGCTTTTAGGGGCTTACTGGGAGCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTGCTGCAGCAGCAGCGGAacac < 6:178098/149‑1 (MQ=255) gTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCTGCAGCAGCAGCGGAACACTg < 8:39845/149‑1 (MQ=255) | TCATCCCGTCGGTGGAGCGGGTGAGGCTGCGAAGAAGGAGACGCGATGGGTGGCACCGGCTTTGCCGGTGTTCGCGGGTGAACCCGCTCCTACAATGGGCTGCGTTAGGCAGAAGCTTATTTTCGGCAGAAAAAAAAGCGCCGGGCGGTGGCCGCCGGGCGCTTTTAGGGGCTGACTGGGATCAGTCGCGGTACAGGATGGCCGAGCCCCACGACAGGCCCACGCCAAAGCCACTGATCGCCACGCGCTTCCAGCT‑GCCATCGAGCATGTGCTTCTGCAGCAGCAGCGGAACACTG > NC_002947/4970455‑4970750 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |