Table 2 Types of mutations and their probabilities.
Mutations | Description | Probability |
|---|---|---|
Duplication | A stretch of 1 or more genes is duplicated. Stretch length is geometrically distributed with P = 0.3 | 0.001 |
Deletion | A stretch of 1 or more genes is deleted | 0.001 |
Inversion | A stretch of 1 or more genes is inverted in order | 0.001 |
Translocation | A stretch of 1 or more genes is moved to a random location on the genome. | 0.001 |
Gene discovery | Per time-step probability of discovering a new gene (randomly parameterised) | 0.0001 |
Horizontal Gene Transfer | Per time-step probability of copying a gene from a cell in a neighbouring site | 0.0005 |
Point mutation | Per gene per generation probability of modifying a single parameter of a gene | 0.02 |
Evolvable gene parameters | Gene types | Value range |
Promoter strength | Enzyme, transporter | [0.01, 8] |
KS | Enzyme, transporter | [0.01, 8] |
KE | Transporter | [0.01, 8] |
Vmax | Enzyme, transporter | [0.01, 8] |
Exporting | Transporter | [True, False] |
