After replacing my alternator I noticed the alternator fuse blew replaced it now I have lights that do not work and the battery light is on

I just replaced my alternator and in the process blew my alternator fuse I replaced that and I still had a battery sign on. I am running two optima betties and a normal battery under the hood. As soon as I pulled in to work my dash lights went out and the radio went off everything else were good. Headlight and dome lights were good, the truck stayed started. Then I turned the truck off and it will not start no clicking or anything. The door sign worked on the dash and that is it dome lights work, headlights still work, but no start now. I have a single 15 that was killing my alternator so I unhooked it as soon as this happened. What should I look at next to see why it is not starting? Also, none of the windows will go up and before this happened and sometimes when I use my signal light the head lights go out.