A few things here. Firstly:

So has anyone tried to crack the code that was found in Bertram's storage locker? (BTW, I doubt that it's McAllister's storage unit - nobody calls anyone "Mr first name". There's no reason for her to do that, and Bertram would obviously use a false name for his storage unit, considering he appears to be the head of The Blake Association - Blake did the illustrations for THOMAS Gray's poems)

So back to the code - I started trying to decipher it. I found some interesting things that others might find helpful. I just don't have the time to continue with it now.

Have a look - http://i.imgur.com/sERqI83.png

Looking at the promos for next week's episode:

Freeze-frame and there is a single person in all the important shots - wearing the same clothing in all, which is how I got there. The person breaking through the glass looks like McAllister (trousers + black jacket) or a stunt double that looks identical to him. The man walking in to the church to meet Jane looks like McAllister (trousers + black jacket). The guy Jane is chasing in the graveyard looks like McAllister (trousers + black jacket). 

So either none of those shots are of Red John and McAllister is alive and Jane is after him for some other reason, or Red John is Sheriff McAllister...