Disclaimer
Preface
Acknowledgements
MEGA Software Development Team
Copyright
Citing MEGA in Publications
Part I: Getting Started
Part II: Assembling Data for Analysis
Part III: Input Data Types and File Format
Part IV: Evolutionary Analysis
Part V: Visualizing and Exploring Data and Results
Appendix A: Frequently Asked Questions
Appendix B: Main Menu Items and Dialogs Reference
    Main MEGA Menus
       Main MEGA Window
       Data Menu
       Distances Menu
       Likelihood
          Maximum Likelihood (ML)
          Find Best DNA/Protein Models (ML)
          Estimate_Substitution_Matrix (ML)
          Estimate Transition/Transversion Bias (ML)
          Estimate Rate Variation among Sites (ML)
          Analyze User Tree by Maximum Likelihood
          Estimate Position-by-Position Rates (ML)
          Estimate Selection for each Codon (HyPhy)
       Phylogeny Menu
       Alignment Menu
       Help Menu
       Parsimony
    MEGA Dialogs
Appendix C: Error Messages
Glossary
References