Evolutionary Sequence Mutation Simulator

Simulate protein evolution using continuous-time Markov models with JTT, WAG, and other substitution matrices

Simulation Parameters

Branch Length (expected substitutions/site) 0.1
Number of Time Points 5
Population Size 5
Show mutation positions
Track lineage history
Conserve active sites (C, H, D, E)

What is Evolutionary Sequence Mutation Simulator?

A scientifically accurate protein evolution simulator using continuous-time Markov models. Implements empirical substitution matrices (JTT, WAG) derived from real protein alignments to model realistic evolutionary processes.

How to Use This Simulator

Quick guide to simulate evolution:

  1. Enter your protein sequence
  2. Set branch length (evolutionary distance)
  3. Choose substitution model (JTT, WAG)
  4. Click "Run Simulation"

When to Use

This tool is useful when you need to:

  • Model protein evolution scenarios
  • Generate sequence variants for testing
  • Study mutation accumulation patterns

Example Input

Sample protein sequence:

MKTAYIAKQRQISFVKSHFSRQLEERLGLIEVQAPILSRVGDGTQDNLSGAEK

Try with your own sequence or use the Example button.

Example Output

Evolution results showing substitutions over time:

Time t=0.0: GIVEQCCTSICSLYQLENYCN
Time t=0.1: GIVEQCCTSICSLYQLENYCN (I3V)
Time t=0.2: GVVEQCCTSICSLYQLENYCN (S11T)
Branch length measured in expected substitutions per site

FAQ

Q: What substitution models are available?
A: JTT (Jones-Taylor-Thornton 1992) and WAG (Whelan-Goldman 2001) - empirically derived from protein alignments.

Q: What is branch length?
A: Branch length represents evolutionary time as expected number of substitutions per site, standard in phylogenetics.