The alias backupVapp will backup the following:
1. OS files under /etc
2. Vapp configuration files under /opt/CA/VirtualApplication/conf, /opt/CA/VirtualApplication/custom
3. wildfly im, ip, ig configuration files if you have the components deployed
4. CA Directory and Provisioning Server config files
5. And UserStore and Provisioning Directory dxdumpdb backup files. If you say Y to the following prompt
Do you want to take a backup of existing User Store and Provisioning Directory Data? (Choosing "N" will backup only configurations) (Y/N)?
then backupVapp will dxdumpdb the User Store and Provisioning Directory data (it will prompt you to shutdown if they are running).
At the end, it will bundle all into an archive file and encrypt it.
But the best way to take a full backup set is to create a snapshot of the vApp nodes (ideally when VMs are shutdown) along with external database . This would ensure everything is backed up from the machine.