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Any way to backup a game save for physical game?

So I wanted to try a Nuzlocke run for Pokemon Y. Of course that means i'd have to delete my file from my first playthrough since there is only one file slot. I don't want to delete the file and I know that I can't backup the save to my 3DS. Is there any other way I can backup the save file?

Nope. You can transfer all your existing Pokemon to Pokemon Bank. The Trade off is that to my knowledge Pokemon Bank only works with one copy of each version.
So you'd have to have another game to send them too. Or they sit on a server until next gen.

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