In your example, AQs is certainly ahead of a 61/39 range, and assuming no one else enters the pot, which isn't certain, you'll have position. So, you have two advantages. However, if you're shaky in terms of how to play in such situations, both immediately and through the course of the hand, this is a disadvantage. Depending how shaky you are, you may not have an overall advantage. If that's the case, it's -EV in the short term to play these situations.
Otoh, in the bigger picture, you'll have to learn how to play them. In part, this is opponent-dependent. For instance, it's preferable to get involved if the opponent is one who folds more often to 3bets and/or cbets, which isn't apparent from his just 61/39 stats.