Use GE II Almond.
The new caulking tool (kind of like a silicone putty knife) works well. It really makes a smooth finish. Watch how much you put into the joint. After sqeezing some into the gap you can use denatured alcohol in a spray bottle to keep it from sticking to things you don't want it to.
Another tip: You can lay some heavy mono (40-80lb) in the groove before you seal it. Remember what corner you have the end at and if you have to take it up, you just have to dig out the end and pull. It will slice the caulk.
I resealed my small acces hatch in my Sailfish and forgot about the mono. Next time. Used GE almond, blue tape and wet my finger with water & dishwasher soap. Couldn't tell the repair from the original.