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The Space Pirates battle theme first appeared in Metroid Prime and later was remixed for the same purpose in Metroid Prime 2: Echoes, Metroid Prime 3: Corruption and Metroid Prime Pinball. Each version has a different mix to it, with Echoes' version adding extra drums and Corruption's version adding extra sounds. The theme is remixed for the Shooting Range in Metroid Prime: Federation Force, which features targets with Space Pirate likenesses.
The theme sounds similar to the track "Futile Escape" from the movie Aliens. This is more than likely a subtle nod to the series, as Aliens was the main inspiration for the Metroid franchise as a whole.