Chris can probably explain this a lot better than I can but put simply, the Phrygian mode is not a scale all by itself. It is relative to the Ionian (aka Major scale) mode. It starts from the 3rd note in the relative Ionian scale, and starts again on the 10th note (or 3rd note but one octave higher) of the Ionian scale. So both representations are actually correct because they are playing the same relative notes.


Looking at the C Major scale for an example:
C D E F G A B
1 2 3 4 5 6 7

I'll just extend it to two octaves to help with the above explanation:
C D E F G A B C D E F G A B
1 2 3 4 5 6 7 8 9 10 11 12 13 14

Ionian
1 2 3 4 5 6 7
C D E F G A B

Dorian
2 3 4 5 6 7 8
D E F G A B C

Phrygian
3 4 5 6 7 8 9
E F G A B C D

And so on...



Hope this helps.. if not, let us know.