In fact. The towing package will come with many rear gears, including a 3.15.
However. For a 5000lb loaded TT the 3.55s you are thinking about will do just great. An 3.5 EcoBoost with the 3.55s is rated to tow from 7300lb in a super crew 4x4 to 9800lbs in a 4x2.
Of course is does depend on the GCVWR package you have, which depends on the GVWR package you have. To get the 9800lb tow cap. you will need a minimum GCVWR of 15000lb. To get that you will need a minimum GVWR package of 7650lbs.
However a 13400lb GCVWR package gets you 7500lbs of tow capacity. which is enough to tow your 5000lb TT.
so you see. It really does matter what rear gear you get. A 3.73 rear will get you to 11,300lb of towing capacity. But it is highly doubtful you will ever find one of those on a dealer lot, as they get the higher gears to promote MPG to buyers that don't do their homework.