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I read the blood clotting thing, from "Darwin's Black Box". This is such a complex system.I'm not a scientist so I can't enter in deep explanation, I'm sure you know more than I do.
Last time this came up, someone mentioned that there are organisms with part of the blood clotting system we have. It's not IC.
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The bridge is made by people not by itself. When we study nature we don't expect it to "create" intricate things even in long periods.
However, nature can create structures similar to the bridge via deposition, lithification, and erosion. Haven't you ever seen a natural bridge?
Short on time, I may answer some more of these later today.