SOS: Mail messages there, but Mail can't see them!

Hi folks. My wife just changed ISPs. She had three email addresses through her own domain.
Now she can send and receive emails from all three, but in two of the three mail accounts all the emails that were in her account are 'gone'.
But they're not actually gone completely though - when I go to Users/xyz/library/mail the accounts are still there, and I can work down through the various inboxes etc and see the messages - when I doubleclick to open them they open in Mail.
It's not that they're in the wrong spot or anything - I can see that new emails are also going into those very same folders, so Mail's still 'pointing' the addresses to the right folders. It's just that Mail isn't displaying any messages that were there before today.
I'm guessing there must be some file that indexes the messages in the folder so that Mail knows they need to be displayed. Could anyone tell me what it is, and how I'd force it to rebuild/fix itself?
BTW, I've tried restarting already.
Weird that one account went fine, all messages still showing, and the others have the problem.

Hello Paul:
Try rebuilding the mailbox(s). Open Mail. Highlight the mailbox(s) you wish to rebuild. Click on mailbox>rebuild (menu bar).
Barry

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