Source and decoding
אבל הכא, דודאי דחזינא דשקל — מי יימר דאכלתיה? הוי ספק וודאי, ואין ספק מוציא מידי ודאי
But here, where we certainly saw that it took – who says it ate it? This is a doubt against a certainty, and a doubt does not remove a certainty.
The Mishnah says we do not suspect a weasel dragged chametz from place to place, and the Gemara distinguishes: where we did not see it take, there is no concern, but where we saw it take, we suspect and a search is needed. The Gemara asks why we do not assume it ate it, and Rava explains that where we saw it take, assuming it ate it is a doubt against a certainty. The rule is stated here for this case, and the Gemara goes on to test it.