Three questions about removing a numbered Mail message file

ClamXav, the anti-virus program, has found several old messages filed by Mail.app v4.4 that are infected with various exploits. Finder shows that the filenames for these messages are numbered, followed by the email file extension, like this: 359959.emlx
Question 1: Can I simply delete these files individually via the Finder and do nothing else, calmly confident in the knowledge that Mail.app, robust as Apple engineers can make it, doesn't care a whit whether an individual mail file is there or not?
Or
Question 2: Do I have to locate them via Mail's interface and delete them from there because otherwise Mail.app, so fragile, will have a fit, die, explode or wither to a pathetic whimper of its former self because I had the temerity to delete a file without genuflecting and consulting it?
Or
Question 3: If I have to locate the files and delete them via Mail, how do I use the file name to point to a specific message in Mail's inscrutable interface?
Thanks.

I'd just delete them. However, if you're worried about it, just leave them alone. They can't hurt anything.

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