The Pentatonic Minor Scale is the primary scale on the Native American flute.
Full Name: Mode One Pentatonic Minor
Scale steps: 3-2-2-3-2
Here's a sample of the basic scale as well as a woven scale on an E minor Native American flute:
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Nakai Tablature and Notes
Possible Alternate Fingerings on Six-Hole Flutes
Possible Alternate Fingerings on Five-Hole Flutes
Woven Scale Exercise