Pairwise comparison

For a given set of aligned sequences (see Sequence alignment) it is possible make a pairwise comparison in which each pair of sequences are compared to each other. This provides an overview of the diversity among the sequences in the alignment.

In CLC Main Workbench this is done by creating a comparison table:

        Toolbox in the Menu Bar | Alignments and Trees (Image alignmentsandtrees)| Pairwise Comparison (Image pairwise_comparison)

   or  right-click alignment in Navigation Area | Toolbox | Alignments and Trees (Image alignmentsandtrees)| Pairwise Comparison (Image pairwise_comparison)

This opens the dialog displayed in figure 21.13:

Image createpairwisecomparisonstep1
Figure 21.13: Creating a pairwise comparison table.

If an alignment was selected before choosing the Toolbox action, this alignment is now listed in the Selected Elements window of the dialog. Use the arrows to add or remove elements from the Navigation Area. Click Next to adjust parameters.



Subsections