| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 4,970,038 | T→G | 11.4% | T84P (ACT→CCT) | fliC ← | flagellin |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 4,970,038 | 0 | T | G | 11.4% | 105.2 / 8.0 | 44 | T84P (ACT→CCT) | fliC | flagellin |
| Reads supporting (aligned to +/- strand): ref base T (19/20); new base G (3/2); total (22/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.94e-01 | |||||||||||
GTGGTGTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAG > NC_002947/4969899‑4970182 | gtggtgTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGgcg < 1:1103139/150‑1 (MQ=255)gtggtgTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGgcg > 2:769428/1‑150 (MQ=255) gtgtTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCt > 2:142367/1‑150 (MQ=255) ttAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAACGCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCACCTTca < 1:1050522/150‑1 (MQ=255) gCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATCGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTAACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTcagta > 2:573504/1‑148 (MQ=255) tACGGGTGAGCTCGCCCGACAGCACGATTACCTCCTGCTGCCTGGAGGGGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCTATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑ttt < 1:76/150‑1 (MQ=255) gggTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTgcg < 1:378245/150‑1 (MQ=255) gTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCa > 1:1129364/1‑150 (MQ=255) cGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAgaga < 1:1107549/150‑1 (MQ=255) cGACAGCGCGGTAAACTCCTGCTGCATCGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATAcc > 1:476541/1‑150 (MQ=255) ggTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGc > 1:404907/1‑150 (MQ=255) ggTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTACCCCAGCCGATCGTTGATTGCAGGGCCAGTTCACGCATACGCTGCATGATATTGCCTGGAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGc > 1:570668/1‑150 (MQ=255) ctgctgCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGAc > 2:693218/1‑150 (MQ=255) aTGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACg > 1:421399/1‑150 (MQ=255) tGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGAG‑AATAATTAGATAAGCACAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGc > 2:29357/1‑150 (MQ=255) gAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTc < 1:693218/150‑1 (MQ=255) cgGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCt < 2:476541/150‑1 (MQ=255) gtcgtcATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCttt < 2:1031298/150‑1 (MQ=255) cgtcATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttga < 1:67318/150‑1 (MQ=255) gCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGt < 1:572737/150‑1 (MQ=255) gTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGt < 2:637297/150‑1 (MQ=255) cGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGga < 2:1129364/150‑1 (MQ=255) gCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTcag < 1:840193/67‑1 (MQ=255) gCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTcag > 2:840193/1‑67 (MQ=255) ccGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGgaga > 2:207302/1‑150 (MQ=255) cAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAg < 2:421399/150‑1 (MQ=255) gCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttga > 2:312412/1‑120 (MQ=255) gCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCtttgatttga < 1:312412/120‑1 (MQ=255) ttCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTgcggc > 1:675448/1‑150 (MQ=255) aCGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGTCACTGGGAGATCTGCAGGCCTGCGGcgtc < 1:29357/150‑1 (MQ=255) cATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCgtcgtc < 2:404907/150‑1 (MQ=255) aTACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAAc < 2:184002/89‑1 (MQ=255) aTACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAAc > 1:184002/1‑89 (MQ=255) gTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGAt > 2:631857/1‑150 (MQ=255) gTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGAt > 2:1127706/1‑150 (MQ=255) cTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCa > 1:310602/1‑150 (MQ=255) cTGAAGGCGCCATGGCGACTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGt < 2:307062/94‑1 (MQ=255) cTGAAGGCGCCATGGCGACTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGt > 1:307062/1‑94 (MQ=255) tGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGga > 2:204389/1‑105 (MQ=255) tGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGga < 1:204389/105‑1 (MQ=255) tGAAGTCCCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGCTGGCGTTCTTGACCGCAACGCTCAGACCTTGGATTTGAGTGGTCAGACGGTTAGAGATCTGCAGGCCTGCGGCGTCGTCTTTGTCACTGTTGATTTTCAg < 2:570668/150‑1 (MQ=255) tGAAGGCGCCATGGCGACTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAg > 2:872675/1‑150 (MQ=255) gAAGGCGCCATGGCGACTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGcgtc > 1:850696/1‑125 (MQ=255) gAAGGCGCCATGGCGACTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGcgtc < 2:850696/125‑1 (MQ=255) | GTGGTGTTAGCAATACGGGTGAGCTCGCCCGACAGCGCGGTAAACTCCTGCTGCATGGAGGCGCGGTCGTCATCGCTGTTCGAGCCGTTCGCCGATTGCAGGGCCAGTTCACGCATACGCTGCATGATGTTGCCTGAAGTCGCCATGGCGCCTTCAGCAG‑TTTGCGCAATAGAGATACCATCGTTGGCGTTCTTGACCGCAACGCTCAGACCTTTGATTTGAGTGGTCAGACGGTTGGAGATCTGCAGGCCTGCGGCGTCGTCTTTGGCACTGTTGATTTTCAG > NC_002947/4969899‑4970182 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |