Virtual Server Backup over quota

I have been using Virtualmin for a while now to host multiple websites. I always manually backed up my websites but this time I backed it up using the backup and restore. But the one site I backed up it is saying that virtual server is over it's quota now. I've tried moving the backup to my external hdd to remove it from that virtual server but I can't get it to remove off the virtual server quota.

Webmin: 1.585 Centos 5.8

Thanks