The was story about werewolves where a girl was abused in her pack and ran away though she was in her wolf form because she was forced into that state, But then she ran into the other biggerwerewolf territories where they found her. One of the werewolves protected her since she was his mate and was taken in by the pack. She had major trust issues. She was also destined to be the Alpha.
Sounds like The Wolf Within by EllyB