JAL-2388 introduced the ability to omit hidden regions in the overview. The default setting should be a user preference.
Additionally JAL-2588 raised need for two new preferences and overview settings:
Enable/disable legacy grey/white behaviour
Default colour for gapped positions in overview
Attachments
Issue Links
blocks
JAL-2588Show gaps in overview window by colouring differently
Closed
depends on
JAL-2664Overview window redraws every hidden column region row by row
Closed
related with
JAL-2388Option to exclude hidden regions in overview window