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Answer for the clue "Algae distinguished chiefly by having flagella and a clear green color, their chlorophyll being masked little if at all by other pigments ", 13 letters:
chlorophyceae

Word definitions for chlorophyceae in dictionaries

Wikipedia Word definitions in Wikipedia
The Chlorophyceae are one of the classes of green algae , distinguished mainly on the basis of ultrastructural morphology. For example, the chlorophycean CW clade , and chlorophycean DO clade, are defined by the arrangement of their flagella . Members of ...