Checking the odds on the twodimes poker calculator we get this...
pokenum -h 6c 6s - 6h 6d
Holdem Hi: 1712304 enumerated boards
cards win %win lose %lose tie %tie EV
6s 6c 37118 2.17 37118 2.17 1638068 95.66 0.500
6d 6h 37118 2.17 37118 2.17 1638068 95.66 0.500
so it seems that you have about a 2% chance of catching a flush, assuming that there is no other way to win without getting a flush (which there isn't).
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