At the present moment I have a website hosted on example.com/myWebsite, where example.com hosts in its root directory a different website. I have the domain example.net, which redirects to example.com/myWebsite. The point, however, that right now when somebody accesses example.net they are redirected to example.com/myWebsite and consequently to example.com/myWebsite/dirA, example.com/myWebsite/dirB etc..

I am now thinking about upgrading my account so that example.net no longer redirects to example.com - I was however wondering, however, since Google shows results searches in terms of example.com/myWebsite, how would this affect my rankings?