You may not see it from a map or satellite, but there are natural rivers that run through Tokyo that the city has been built on top of. The rivers are still there, they’re just underground. Also Japan get some serious monsoon rains and Tokyo built a [massive flood system](https://www.nytimes.com/2017/10/06/climate/tokyo-floods.html). I don’t think the flood system itself is used as a water supply, but the rains fill up massive water reservoirs that are both above and underground. This is what supplies water to a city.
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