For best results DIM (Do It Manually!)
Joking apart I would stay away from automatic audits, they are often incorrect and can give you a pack of trouble.
I would start by setting yourself out a strategy something like the following:-
- Fix coding and visual errors
- Use Moz Open Site Explorer and find which sites have the best reputation on the web (you can compare several sites in one go).
- Research all the domain names that you have, put them in a spreadsheet, rate them for brandability, reputation and if they have any current positions worth maintaining.
By the end of this you should have a good idea of the quality and how far reaching powerful brands are.
Also don't forget social media, although not directly related to SEO it will give you a good idea is to brand reputation.
Hope understood your question correctly, if not please elaborate and see what I can do to help.