| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NZ_CP009273 | 2,448,105 | G→A | pseudogene (376/2646 nt) | yfcU ← | fimbrial usher protein YfcU |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 2,448,105 | 0 | G | A | 96.8% | 231.4 / ‑2.1 | 63 | pseudogene (376/2646 nt) | yfcU | fimbrial usher protein YfcU |
| Reads supporting (aligned to +/- strand): ref base G (2/0); new base A (31/30); total (33/30) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.93e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.91e-01 | |||||||||||
CGGAGATGCCATCATCCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGGCTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGTAA > NZ_CP009273/2447970‑2448238 | cGGAGATGCCATCATCCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACtt < 2:683799/139‑1 (MQ=255) gagaTGCCATCATCCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACtt > 1:286931/1‑137 (MQ=255) ccATCATCCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCAtt > 1:1186324/1‑139 (MQ=255) catcCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTc > 1:18267/1‑128 (MQ=255) catcCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTc < 2:18267/128‑1 (MQ=255) cAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGt < 2:1155812/139‑1 (MQ=255) tCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCg > 1:66835/1‑139 (MQ=255) ggTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGtct < 2:138298/139‑1 (MQ=255) tatTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTcttctt < 2:447590/139‑1 (MQ=255) ttCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGcc > 1:421429/1‑127 (MQ=255) ttCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGcc < 2:421429/127‑1 (MQ=255) ttCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCtttt < 2:201675/139‑1 (MQ=255) aGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAAc > 1:1055751/1‑139 (MQ=255) ggTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAAc > 2:1204595/1‑138 (MQ=255) ggTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAAc > 1:1048066/1‑138 (MQ=255) ggTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAAc > 2:228585/1‑138 (MQ=255) gCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGCTTTTTCGCCACGTCTTCTTTTAAACCAAACt > 2:183667/1‑139 (MQ=255) ccTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTg > 1:153840/1‑139 (MQ=255) cGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTgcgc > 1:753758/1‑138 (MQ=255) cGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTacgc > 2:209818/1‑138 (MQ=255) tGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGGCTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGt > 1:159677/1‑139 (MQ=255) aaaTGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTc < 2:614863/139‑1 (MQ=255) aCTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGtc < 2:52585/104‑1 (MQ=255) aCTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGtc > 1:52585/1‑104 (MQ=255) aCTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGgtg > 1:1277378/1‑139 (MQ=255) aCTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGgtg < 2:840705/139‑1 (MQ=255) aCTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGgt < 2:947946/138‑1 (MQ=255) aaTGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGgtgt > 2:5061/1‑137 (MQ=255) aTGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAg < 2:961163/139‑1 (MQ=255) gACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAg > 2:98940/1‑139 (MQ=255) gACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAg > 2:814271/1‑139 (MQ=255) gACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAg < 1:115163/139‑1 (MQ=255) aCTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTcttctt > 1:129023/1‑99 (MQ=255) aCTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTcttctt < 2:129023/99‑1 (MQ=255) tGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTgcgc < 1:4476/113‑1 (MQ=255) tGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTgcgc > 2:4476/1‑113 (MQ=255) aaTCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCtttt > 2:743904/1‑139 (MQ=255) gCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTAcc < 2:887972/47‑1 (MQ=255) gCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTAcc > 1:887972/1‑47 (MQ=255) gCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTaa < 1:98940/139‑1 (MQ=255) gCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTaa > 2:1259468/1‑139 (MQ=255) gCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTaa > 1:136218/1‑139 (MQ=255) gCCTTAATTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTaa > 2:488529/1‑139 (MQ=255) aaTTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTc < 2:1055751/138‑1 (MQ=255) aaTTTCCACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTc < 1:1259468/138‑1 (MQ=255) cACGCCTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCa > 1:781112/1‑139 (MQ=255) cTTCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAg > 1:1029420/1‑138 (MQ=255) tCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGccac > 1:541175/1‑86 (MQ=255) tCCAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGccac < 2:541175/86‑1 (MQ=255) ccAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCa < 1:358646/137‑1 (MQ=255) ccgTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAGCCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATa < 1:548759/136‑1 (MQ=255) cAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATa < 2:136218/138‑1 (MQ=255) cAGTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATa < 1:1243099/138‑1 (MQ=255) gTTGACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCa < 2:1228266/139‑1 (MQ=255) gACCGGGCTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGt > 2:1246580/1‑138 (MQ=255) gACCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGt < 2:1186324/138‑1 (MQ=255) aCCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGt > 2:1013247/1‑137 (MQ=255) aCCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGt < 1:1013247/137‑1 (MQ=255) aCCGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGTaa < 1:684956/139‑1 (MQ=255) cGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGcc > 2:845970/1‑47 (MQ=255) cGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGcc < 1:845970/47‑1 (MQ=255) cGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGt < 2:598927/135‑1 (MQ=255) cGGACTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGt > 1:598927/1‑135 (MQ=255) | CGGAGATGCCATCATCCCAACGAGAAGGTGGATCCCAGTCGGGCCAGGTATATTCGAGGTAAGCCTGCGGTAGTGAAATGACTAATGCGGACTGGCTTAAATCAGCCTTAATTTCCACGCCTTCCAGTTGACCGGGCTTCAGGCATTTACCATCGTGGCTCCATTGCAGATTTTTCGCCACGTCTTCTTTTAAACCAAACTGCGCCACCAGTTCCGGTGTCAGACAAGCATAGCTTTTGCTAACGTCATCTTCACCAGCATACCAGTAA > NZ_CP009273/2447970‑2448238 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |