No it doesnt. You put your phone into download mode - the most basic low level mode there is, and Odin flashes the phone directly. Odin is made to work regardless of whats on the phone itself.
Oding flashing isnt detectable, so they'll never know.
There isnt any way for them to know if you flashed with odin, rooted or anything else as long as you flash back a genuine firmware for your region and also have the coresponding CSC.
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