The results window is a scrollable window containing the plots from the selected analyses in aligned panels. In combined-plots mode, the results of each analysis are displayed in a single panel. In separate-plots mode, results for each reading frame is displayed on a separate graph, so there will be either three or six panels, depending on whether you specified one or both strands.
The open reading frames plot always combines the three frames in a single color-coded panel, showing markers for starts, stops and rare codons, and bars representing open reading frames that exceed the minimum length. When you select separate-plots mode, the starts, stops and rare codons are also displayed in the frame results panels of your other analyses.
Prominent peaks in the graph indicate regions that exhibit a codon preference. Such regions are very likely to code for highly expressed proteins.
To inspect potential coding regions, you will usually need to select a region of the plot and display it at greater magnification. When you select a region, all the results plots are re-scaled, keeping them aligned.
For a discussion of the interpretation of coding preference plots, see Chapter 16, "Understanding Protein and DNA Analysis", in the MacVector User Guide.
See the Keyboard shortcuts help topic for navigation around plot windows.