I mistakenly deleted a file from one of the autorestore backup folders using the webhost control panel. I had already deleted the file from the original folder.
The ARQ readme says never to do this because it can cause serious website problems because ARQ is using the database to perform some tasks. Unfortunately, I read this after going in a deleting the file.
Everything seems to be ok, but I was wondering if there was anything I should watch out for or steps to take to make sure no problems develop.