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Is there any difference to build 1 domain and 2 domains with the same material in RF/wave optics module?

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Hey guys,
I am trying to build a model to calculate a component's absorption. The component lays on Si and the wave incidents from air to Si.
I use periodic PC and 2 periodic ports to calculate it. But the result is far to my expect.
So I made a test. I found that, if I set the component's domain to air, the E-field is still not the same as there is no component's domain,as the pics attached.
Am I wrong to build the model? What should I to fix this problem?
Thank you!

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