| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 4,970,049 | C→A | 14.8% | G80V (GGC→GTC) | fliC ← | flagellin |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,970,049 | 0 | C | A | 14.8% | 64.0 / 4.8 | 27 | G80V (GGC→GTC) | fliC | flagellin |
| Reads supporting (aligned to +/- strand): ref base C (12/11); new base A (2/2); total (14/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.38e-01 | |||||||||||
GTGTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCAGAGGACAGACGA > NC_002947/4969902‑4970198 | gtgtTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCt > 2:474119/1‑150 (MQ=255) gCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTcagca > 1:8721/1‑150 (MQ=255) gggTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTcaggcaa < 1:336250/145‑5 (MQ=255) gggTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTcaggcaa > 2:336250/1‑141 (MQ=255) ccGACAGCGCGATAAACTACTGCTACATGGAGCCGCGGTCGTCATAGCTGTTCGAGCCGTTCGCCGATTGCAGGACCAGTTCACGAATACACTGCATGATGTTAACTAAAGTAGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATAc > 2:434560/1‑150 (MQ=255) gcgcGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGt > 2:542212/1‑150 (MQ=255) tCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTg > 1:41804/1‑150 (MQ=255) ccTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGa < 1:542212/150‑1 (MQ=255) ctgctgCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTca < 1:290539/109‑1 (MQ=255) ctgctgCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGGCGCCATGGCGACTTca > 2:290539/1‑109 (MQ=255) cgtcATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCtttga < 2:41804/150‑1 (MQ=255) cTGTGCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGGTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTg > 2:105135/1‑150 (MQ=255) gTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGt < 1:243362/150‑1 (MQ=255) gCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACg > 1:232666/1‑150 (MQ=255) ttGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTg < 1:307221/150‑1 (MQ=255) gCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCa < 2:8721/150‑1 (MQ=255) aGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCa < 1:609584/109‑1 (MQ=255) aGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCa > 2:609584/1‑109 (MQ=255) aCGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCtttgat < 2:220096/108‑1 (MQ=255) aCGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCtttgat > 1:220096/1‑108 (MQ=255) tACGCTGCATGATGTTGCCTGAAGTAGCCATCCCTCCTTCATCAGTTTGCCCAATAGAGATTCCGCCG‑CGGAGTCTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCtt < 1:474119/150‑1 (MQ=255) cGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTg < 2:232666/150‑1 (MQ=255) cATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTg < 1:562192/103‑1 (MQ=255) cATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTg > 2:562192/1‑103 (MQ=255) gTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCa > 1:294026/1‑150 (MQ=255) aTGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCtttgatttga < 2:142453/78‑1 (MQ=255) aTGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCtttgatttga > 1:142453/1‑78 (MQ=255) gcgcCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCATGCGGCGTCGTCTTTGGCAGTGTTGATTTTCAGGAGAGAGGACAga > 2:248931/1‑150 (MQ=255) ccTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCAGAGGACAgacga > 2:534722/1‑150 (MQ=255) | GTGTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAGTTTGCGCAATAGAGATACCATCGTTGGCGT‑TCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAGGCCAGAGGACAGACGA > NC_002947/4969902‑4970198 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |