You can display a guide tree for aligned sequence results when four or more sequences are aligned together. The tree shows the relationships that ClustalW generates when doing pairwise alignments, and is shown as a phylogram or a cladogram, with the distances between nodes shown in phylogenetic units. As an approximate guide, a value of 0.1 corresponds to a difference of 10% between two sequences.
NOTE: These guide trees may not be true phylogenetic trees.
2. In the Picture Display panel of the Alignment Views dialog
box, select the Guide Tree check box.
2. Select OK to close the dialog box.
The guide tree is displayed in a Guide Tree Tab.
You can only display a Guide Tree for ClustalW alignments and T-Coffee alignments. You cannot show a Guide Tree with a Muscle alignment.
Performing a ClustalW alignment