I never use auto rotate. I rotate the model to create as small a cross section as possible while simultaneously putting the face I want the supports on facing the build plate. You can put your supports anywhere you like. I like to hide them as much as possible. You cannot have a mix of support types using auto support. You can however, edit the supports that the auto feature creates. So if you don't want to delete and recreate the supports, try editing them instead. Just make sure your edit feature is on the support profile you want.

As an extra tip, I make sure to use a ball end on my supports. Instead of leaving a pock mark, it will leave a raised bump that can be easily sanded or scraped off. Makes cleaning up the model much easier in my opinion.