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A Yale professor of Greek history would agree with your last comment, as that you tube clip I posted shows. He maintains that the "core" of Greece is the Aegean islands.
I wouldn't be so sure about this. The Greek islands were populated by many non-Greek populations (Carians, Minoans, and so on) and were colonized by the mainland the same way Cyprus, Sicily, and southern Italy were. Without ancient samples we cannot say if the people there were ever mostly 'Greek' by blood, or Hellenized. They may have changed comparatively less over the millennia, though.
Also, I would be surprised if all the Aegean islands are genetically the same as one another. There may be a gradient there too.