Construct a Character-Based Phylogenetic Tree

1. Compute a maximum parsimony tree using the method protpars (Programs -> phylogeny -> parsimony -> protpars) and upload the multiple sequence alignment in ClustalW format using the ``Browse'' button. Choose option ``Randomize input order of sequences'' and provide a ``Jumble random number seed'' and submit the job by clicking the ``Run'' button.
2. Choose method drawtree from the pull-down-menu and click button ``further analysis'' in the subsection ``Tree file (Tree)'' in the result page from the previous step.
3. Click the ``Run'' button to draw the tree.
4. Compare the graphic tree files of the distance- and character-based methods.