Tunes disappear from folder - but still play in iTunes???

I can play songs in iTunes that have disappeared from the iTunes music folder. Maybe I'm fundamentally misunderstanding something, but this has me baffled.
Here's what's happened: I was looking at my iTunes music folder in Finder. I double-clicked on a song (an mp3 file); iTunes opened and played the song. But when I closed iTunes, the song was missing from the folder!
I opened iTunes, found the song in the library, and played it again. I did a 'Get Info' in iTunes and it still shows the song as being in my music folder.
I used spotlight to search for the song name, and it, too, shows the song as being in the iTunes music folder.
But it still doesn't show up when I open the folder in Finder.
Worried that something was going wrong with the file structure, I did a clean install of the OS (10.4.11) and upgraded to the latest iTunes (7.5).
Since then, I've replicated the process with two other songs.
Any ideas?

All of the PDF documents on my iPad disappeared. This seems to be a problem that a number of people have experienced, although a clearly documented solution does not appear to be readily available.
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Tunes disappear from folder - but still play in iTunes???

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