Adding the navigation to Elements is very easy to do. Simply add an 'Auto-Nav' block to either the 'Sitewide Header Nav' area (Horizontal Navigation) or the 'Sitewide Sidebar Nav' (Vertical Navigation) area. Configure this block how you wish and then once saved to the page you can click on this block and select 'Custom Template'.
If you are adding a Horizontal Navigation to your site then from the menu, select 'Elements Horizontal'. If you are adding a Vertical Navigation then select 'Elements Vertical'. You can either select one or the other, or if you wish use both together - the choice really is yours.
Elements comes with 4 pre colored 'themes' & 1 customizable theme, 'Aether'. If you wish to choose your own color scheme then you should activate 'Aether' from the 'Themes' menu in the 'Dashboard'. You can then click 'Customize' next to this theme. You can select any combination of colors to take the site in any direction you wish.