UNIT 6.5 Using MODELTEST and PAUP* to Select a Model of Nucleotide Substitution
Published Online: 1 FEB 2003
Copyright © 2003 by John Wiley and Sons, Inc.
Lab Protocol Title
Current Protocols in Bioinformatics
How to Cite
Posada, D. 2003. Using MODELTEST and PAUP* to Select a Model of Nucleotide Substitution. Current Protocols in Bioinformatics. 00:6.5:6.5.1–6.5.14.
- Published Online: 1 FEB 2003
- Published Print: JAN 2003
Models of nucleotide substitution are commonly used in the analysis of DNA sequences. This unit describes the use of the program MODELTEST (coupled with PAUP*) to find the best-fit model of substitution for the sequence alignment at hand. An example data file is analyzed and the interpretation of the results is discussed. Some background theory on model selection and a discussion of the relevance of models is included at the end of the unit.