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Alignment Question

Hello. I am trying to better understand how alignments work. For example the advantages of doing multiple alignments vs one single alignment, rotating before translating, etc.

If you don't rotate before you translate, then what XY values does the software use for translation? Does it take the XY values from the alignment the feature was measured in?

Sorry, this question is a bit hard to convey. See, a while back I had a program that gave me different profile results if I translated before I rotated and I'm trying to understand the theory of why.
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