Oh, my friend @Jason ! Welcome and please be at home. Yes, you can doubt. Don;t let anybody tell you you shouldn;t! It is part of the process of change. "Do I buy this car or that one?" to "Should I get married to her (or him)?" to "was that real? Did He really speak to me?
Having traveled the same road you are on, my frend, know this, "You may have doubts, but God never does. He loves you regardless of how you feel, what you think, or how "poor" your performance is. Fini. Done. Finished!
What you felt may have been a bodily reaction. But take a while to think about it in a quiet place. You are both a Body and a Spirit. This is a two part world. Try reading John chapter 3. See what Jesus had to say about the "seen" and the "unseen". Think about the "fact" that science can only answer the "Seen" stuff. The "unseen", the feelings, the love, the inner thoughts of things we have no explanation for.
And there is always "faith". Faith is choosing to believe what you don't know. It doesn't mean you can't have doubts. The thing is, is to always keep coming back to the problem. Keep returning, and thinking, and talking with others and feeling (both!)
Remeber what Jesus said "Ask and it shall be given, Seek and you shall find, Knock and it will be opened to you."
Keep it up my friend. We're all rooting for you!