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breseq version 0.18
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
Predicted mutations | |||||
---|---|---|---|---|---|
evidence | position | mutation | annotation | gene | description |
RA | 615,483 | T→C | L422P (CTG→CCG) | treB | PTS system beta‑glucoside‑specific transporter subunit IIABC |
RA | 751,632 | 2 bp→GC | intergenic (+65/‑193) | napA/gph | Na/H antiporter/haloacid dehalogenase‑like family hydrolase |
RA | 1,030,390 | T→G | H294Q (CAT→CAG) | camS | lipoprotein |
RA | 1,877,343 | 2 bp→AA | intergenic (‑372/‑78) | LGG_01847/LGG_01848 | membrane protein/hypothetical protein |
RA | 1,877,348 | G→A | intergenic (‑377/‑74) | LGG_01847/LGG_01848 | membrane protein/hypothetical protein |
RA | 1,877,374 | C→G | intergenic (‑403/‑48) | LGG_01847/LGG_01848 | membrane protein/hypothetical protein |
RA | 1,883,242 | C→A | intergenic (‑292/+93) | ABC‑SBP/LGG_01854 | ABC transporter substrate‑binding protein/hypothetical protein |
RA | 2,353,548 | G→A | S767F (TCC→TTC) | LGG_02282 | hypothetical protein |
RA | 2,762,662 | +C | coding (325/537 nt) | is66 | transposase IS3/IS911 family protein |
RA | 2,765,383 | G→A | H249Y (CAC→TAC) | glvA | maltose‑6'‑phosphate glucosidase (GH4) |
Unassigned missing coverage evidence | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
seq id | start | end | size | ←reads | reads→ | gene | description | |||
* | * | ÷ | NC_013198 | 1873046–1873059 | 1873917–1873874 | 816–872 | 138 [134] | [136] 144 | [LGG_01843]–[LGG_01844] | [LGG_01843], [LGG_01844] |
* | * | ÷ | NC_013198 | 2574289–2574343 | 2574591–2574418 | 76–303 | 142 [116] | [136] 138 | [LGG_02511]–[LGG_02512] | [LGG_02511], [LGG_02512] |
Unassigned new junction evidence... | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
seq id | position | reads (cov) | reads (cov) | score | skew | annotation | gene | product | ||
* | ? | NC_013198 | = 1038045 | 94 (0.168) | 330 (0.590) | 85/190 | 0.8 | coding (872/978 nt) | LGG_01023 | adenine specific DNA methylase Mod |
? | NC_013198 | 1038906 = | 38 (0.065) | intergenic (+13/‑238) | is36/LGG_01026 | transposase IS4 family protein/type III restriction‑modification system methylation subunit | ||||
* | ? | NC_013198 | 1058951 = | 638 (1.105) | 210 (0.364) | 54/196 | 2.5 | coding (53/183 nt) | LGG_01046 | hypothetical protein |
? | NC_013198 | = 2898115 | 592 (1.005) | coding (225/237 nt) | LGG_02835 | hypothetical protein | ||||
* | ? | NC_013198 | = 1877308 | 10 (0.019) | 344 (0.642) | 83/182 | 0.8 | intergenic (‑337/‑114) | LGG_01847/LGG_01848 | membrane protein/hypothetical protein |
? | NC_013198 | 1878895 = | 18 (0.031) | intergenic (+70/‑60) | LGG_01848/tRNA‑Leu | hypothetical protein/tRNA‑Leu | ||||
* | ? | NC_013198 | 1998770 = | NA (NA) | 2262 (4.001) | 94/192 | 0.6 | intergenic (+363/‑314) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein |
? | NC_013198 | = 1998907 | NA (NA) | intergenic (+500/‑177) | lciIC/LGG_01955 | XRE family transcriptional regulator/reverse transcriptase‑like protein |