The graphics palette is used to edit the symbol set for the currently displayed graphical sequence or results window. These are displayed in the Map View. When a graphical sequence or results window is created, the default sequence symbol set is defined to be the same as the global symbol set. The symbol set for each sequence can be individually edited and saved via the Graphic Palette dialog box. To access this dialog you must have the Map View tab shown. This menu item is a toggle. Once set, the Graphics Palette dialog box will be displayed each time the map view tab is shown, until you select Window | Hide Graphics Palette.
Linear/Circular - the tabs at the top let you toggle the Map between linear and circular views of the sequence. The circular option is disabled if the underlying sequence does not have circular topology. Residues per inch/Line wrap - this section controls the scale of the Map and how "wide" a line is.
A row of 4 buttons provides "quick layout" functionality:
Zoom to Sequence - this adjusts the Residues per Inch so that individual sequence residues are visible. It does this without affecting the current zoomed section.
Fit to Window - adjusts the Residues per Inch and Line Wrap so that the current zoomed section fits in the current window.
Fit to Page - adjusts the Residues per Inch and Line Wrap so that the current zoomed section fits in the current printed page.
Fit Residues - similar to Zoom to Sequence, but this resets the zooming so that the entire sequence is displayed.
The range section lets you zoom to display a specific section by typing in the box or selecting a feature from the popup features menu.
Left Arrow/Right Arrow - these let you "nudge" the zoomed section to either side. You can also use the left/right keyboard arrow keys. For unzoomed circular sequences, these will rotate the graphic on screen.
Home - if you ever get "lost" in a sequence, this will center the sequence on the screen.
Reset zoom - restores the display to show the full sequence. Equivalent to a double-click in a blank area of the Map.
Zoom In/Zoom Out - this pair of buttons zooms in and out of the sequence in two-fold increments. You can also use the up/down keyboard arrow keys.
There is a row of six "mode" buttons that controls what happens when you click and drag with the mouse in the Map window.
Select Zoom - this is the default and the mode used by older versions of MacVector - you can click on features or sites to select them and if you click, hold and drag, the display resets to "zoom in" to the segment you selected.
Select Sequence - clicking and dragging selects the sequence.
Select Features - clicking and dragging selects all the features or sites that are touched by the selection rectangle.
Magnify - in this mode a click magnifies the display 2-fold. Hold down the OPTION key to reduce the magnification 2-fold.
Slide - this mode lets you drag the current zoomed region to the left or right. You can also use this to rotate circular sequences so that any arbitrary location is set to the 12 o'clock position.
Copy Feature Appearance - this mode is only available if you have one or more features selected. Once selected, if you then click on a different feature, all the selected features will change appearance to match that feature