| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 4,945,198 | C→G | 9.2% | intergenic (+558/+240) | PP_5673 → / ← flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,945,198 | 0 | C | G | 9.2% | 152.7 / 4.4 | 53 | intergenic (+558/+240) | PP_5673/flhB | D‑alanine‑‑D‑alanine ligase/flagellin export apparatus substrate specificity protein |
| Reads supporting (aligned to +/- strand): ref base C (21/27); new base G (2/3); total (23/30) | |||||||||||
| 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 | |||||||||||
TCCACCGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGC > NC_002947/4945053‑4945327 | tCCACCGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGccgcc‑‑cgc < 1:127263/149‑1 (MQ=255)tCCACCGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGccgcc‑‑cgc > 5:34436/1‑149 (MQ=255) ccACCGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑cgcg > 8:151037/1‑149 (MQ=255) cACCGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑cgcgc > 8:153267/1‑149 (MQ=255) ccGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCgcgg < 7:153267/149‑1 (MQ=255) cgcgAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCgcggc > 7:290233/1‑149 (MQ=255) gAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCa < 3:1969/149‑1 (MQ=255) aGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGATGCGCCGCG‑‑CGGGCGgcgct < 4:11078/149‑2 (MQ=255) ctctTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATc > 3:287692/1‑146 (MQ=255) ctctTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATc < 4:287692/146‑1 (MQ=255) tctTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATcgc > 3:82815/1‑147 (MQ=255) gCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAgct > 7:219709/1‑149 (MQ=255) aaaaCTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCG‑‑CGGGCGgcgctcga > 1:288126/1‑133 (MQ=255) aaaaCTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCG‑‑CGGGCGgcgctcga < 2:288126/137‑5 (MQ=255) aaaaCTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGa < 1:36836/140‑1 (MQ=255) aaaaCTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGa > 2:36836/1‑140 (MQ=255) tttGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTcc > 4:107144/1‑148 (MQ=255) tGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTa < 3:274871/148‑1 (MQ=255) gtcccAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTATTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCTCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACAtt < 4:178646/147‑1 (MQ=255) aGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATc > 6:152362/1‑121 (MQ=255) aGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATc < 5:152362/121‑1 (MQ=255) ggggCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCg < 4:170730/149‑1 (MQ=255) ggggCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCg < 4:82815/149‑1 (MQ=255) gggCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCgg < 3:107144/149‑1 (MQ=255) gggCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCgg < 7:164515/149‑1 (MQ=255) gCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTc < 6:34436/149‑1 (MQ=255) cATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGGCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCg < 8:290233/149‑1 (MQ=255) cATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGGGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCg < 6:258606/149‑1 (MQ=255) gCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGAt > 8:178816/1‑149 (MQ=255) tAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCTGTTATTCCTGCGGGAtt > 3:64957/1‑148 (MQ=255) gAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGC‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAc > 5:71036/1‑149 (MQ=255) gAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACAttt < 6:266218/118‑1 (MQ=255) gAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACAttt > 5:266218/1‑118 (MQ=255) gAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAc > 4:282710/1‑149 (MQ=255) gAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAc < 7:151037/149‑1 (MQ=255) gAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAc > 1:145555/1‑149 (MQ=255) aGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAcgc < 3:282710/149‑1 (MQ=255) aGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAcgc < 2:145555/149‑1 (MQ=255) tCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCCTTCGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTAcgc < 1:94933/146‑1 (MQ=255) aaCTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGc > 5:219197/1‑149 (MQ=255) gtgAGCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTcg < 7:1055/148‑1 (MQ=255) tgATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTcgc < 8:219709/148‑1 (MQ=255) aTCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATTGA‑GCGCCGCC‑‑CGAGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTa > 1:245282/1‑149 (MQ=255) tgAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCg < 7:178816/148‑1 (MQ=255) aGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAgg < 6:219197/149‑1 (MQ=255) gTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCg > 6:89321/1‑149 (MQ=255) gTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACAGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCg > 5:128307/1‑149 (MQ=255) ttttGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGt > 3:125268/1‑149 (MQ=255) ttGTCGCCTGTGAGATCGA‑GCGCCGGC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCTGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTc < 4:64957/148‑1 (MQ=255) tCGCCTGTGAGATTGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGGGCCGTACAAACAAGGCGGTcgcg < 2:245282/148‑1 (MQ=255) cTGTTAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCTCGCATGCTCGCTCCTACATTTGTTTCTGGCCAGTTATTCCTGCGGGATTTACGCGAGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCgcgcgcgc < 6:71036/149‑1 (MQ=25) gatgcgcCGCG‑‑CGGGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAg < 3:185091/123‑1 (MQ=255) gatgcgcCGCG‑‑CGGGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAg > 4:185091/4‑126 (MQ=255) gcgcCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATAtt > 3:242283/1‑107 (MQ=255) gcgcCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATAtt < 4:242283/107‑1 (MQ=255) | TCCACCGCGAGTCCTCTTGATGCAAAACTTTGACGCCCAGGGGGCGCCTGCGGCTGGCATTGCTAGAAGCTTTCCAACTTTGTGATCTGCTGTGAATCGGGGTGTTCGCCGTGAGGTTTTTGTCGCCTGTGAGATCGA‑GCGCCGCC‑‑CGCGCGGCGCATCGCGAGCAAGCTCGCTCCTACATTTGTTTCGGGCCAGTTATTCCTGCGGGATTTACGCGCGACCGCCTTCGCGTACACCTCGATATTGCGCCGTACAAACAAGGCGGTCGCGCGCGC > NC_002947/4945053‑4945327 |
| Alignment Legend |
|---|
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: ‑ |