To build a dotplot for currently opened sequences, create a multiple view containing these sequences. It can be arranged by dragging the corresponding sequence objects (the items strated with the “[s]”) into the same Sequence View.
Then right-click on the created view and select the Analyze ‣ Build dotplot item in the context menu. Every sequence from the current multiple sequence view can be used to build a dotplot.
If you need to compare a sequence with itself, you can activate the menu from a single Sequence View.