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
Appendix C: Error Messages
Glossary
    ABI
    Alignment Gaps
    Alignment session
    Bifurcating Tree
    Branch
    Branch-and-Bound algorithm
    Close-Neighbor-Interchange (CNI)
    ClustalW
    Codon
    Codon Usage
    Complete-Deletion Option
    Composition Distance
    Compress/Uncompress
    Condensed Tree
    Consensus Tree
    Constant Site
    Degeneracy
    Disparity Index
    Domains
    Exon
    Extant Taxa
    Flip
    Format command
    Gamma parameter
    Gene
    Genetic Codes
    Groups of taxa
    Indels
    Independent Sites
    Inferred Tree
    Intron
    Labeled Sites
    Maximum Composite Likelihood
    Max-mini branch-and-bound search
    Maximum Parsimony Principle
    Mid-point rooting
    Min-mini algorithm
    Monophyletic
    mRNA
    NCBI
    Newick Format
    Node
    Nonsynonymous change
    Nucleotide Pair Frequencies
    OLS branch length estimates
    Orthologous Genes
    Outgroup
    Pairwise-deletion option
    Parsimony-informative site
    Polypeptide
    Positive selection
    Protein parsimony
    Purifying selection
    Purines
    Pyrimidines
    Random addition trees
    Rooted Tree
    RSCU
    Singleton Sites
    Site Label
    Staden
    Statements in input files
    Subtree-Pruning-Regrafting (SPR)
    Swap
    Synonymous change
    Taxa
    Topological distance
    Topology
    Transition
    Transition Matrix
    Transition/Transversion Ratio (R)
    Translation
    Transversion
    Tree length
    Unrooted tree
    Variable site
    Data Coverage
References