(Assuming you right-clicked on a file and selected the "Stop tracking" option.)
This command stages a change that deletes the file (line with a red minus in the beginning in the pending changes), but leaves the file intact on your disk (it shows as an untracked file):
You can undo this by right-clicking on the line with the red minus and selecting "Discard".
EDIT: once this deletion is committed, this is how to undo it:
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