PokéBase - Pokémon Q&A
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You can find it in the Unknown Dungeon.
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Yes you can get Mewtwo in Pokémon Y.

Getting Mewtwo. Speaking of the Pokémon Village, this is also where you'll find the legendary Mewtwo. Just cross a small stream using the Surf HM on the western side, and you'll come across a cave entrance.

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Here's a video just in case you can't understand the quote above.

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It’s hard not to understand the quote.
I know. But, you are not the asker :P . The asker might not understand.