CLC Genomics Workbench can join several alignments into one. This feature can for example be used to construct "supergenes" for phylogenetic inference by joining alignments of several disjoint genes into one spliced alignment. Note, that when alignments are joined, all their annotations are carried over to the new spliced alignment.
Alignments can be joined by:
select alignments to join | Toolbox in the Menu Bar | Classical Sequence Analysis () | Alignments and Trees ()| Join Alignments ()
or select alignments to join | right-click either selected alignment | Toolbox | Classical Sequence Analysis () | Alignments and Trees ()| Join Alignments ()
This opens the dialog shown in figure 20.10.
If you have selected some alignments before choosing the Toolbox action, they are now listed in the Selected Elements window of the dialog. Use the arrows to add or remove alignments from the selected elements. Click Next opens the dialog shown in figure 20.11.
To adjust the order of concatenation, click the name of one of the alignments, and move it up or down using the arrow buttons.