Dear Robin,
Assuming the STC works well then all voxels of a corrected volume are as if they were sampled at the same time point within the TR. Except if you have good reasons not to do so you would try to match this time point by using a (temporally) corresponding microtime onset. If you have a temporal mismatch then your predictors would be based on the assumption that on periods appear earlier or later in time compared to your initial settings (condition onsets).
Best regards
Helmut
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