Google Apps to Google Accounts transition has raised a chance of conflicting accounts as users might have an existing Google Account with their Apps email id. Check for the details on how the user can safely move the data to either transitioned account or to some other personal Google Account.
Now its time you use your Google Apps account like a normal Google account. Google Apps is upgrading all users to Google Accounts which gives users access to more than 60 applications. Admins of Apps accounts can transition users manually before Google Apps team rolls out the changes officially for their organization. Here are the steps for admins regarding Google Apps transition.