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Why has two different alleles for the same trait?

How does the color of light affect the germination time (amount time a plant takes to develop) of a radish seed?

Prokaryotic and eukaryotic cells are different in many ways other than the presence or absence of a nucleus. if both archaebacteria and eubacteria are prokaryotic cells, then why are archaebacteria more closely related to eukaryotic cells than they are to eubacteria?