In TRON-Legacy we find that Kevin Flynn had designed a new Grid, where-in the majority of the movie takes place. While the original Grid was primarily a construct of the MCP's and therefore presumably ran on ENCOM servers, whose hardware did the new Grid run on?
Answer
I was definitely under the impression that the hardware was located in the basement of Flynn's Arcade. He may have setup something (legal or otherwise) to ensure that power was never lost to the computer equipment. In case he happened to be inside.
Because the Master Control Program was likely running on a mainframe or cray machine I think it can be inferred that Flynn had installed a similar machine to his basement circa 1992 hardware. If you look at the machine in the movie is a quite large.

In this image you can see the large computer case on the left (to the right of Sam). It appears to be about as large as an office copy machine. There is probably additional hardware underneath the touch screen interface as well.
The uptime on the computer reads:

20 years, 11 months, 20 days, 16 hours, 22 minutes, and 16 seconds
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