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Your Furnace wire will go to R and W as polarity doesn't matter
The fan wire will go to terminals G

That's All

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Well in two wire system polarity doesn't matter.

You can put any wire in the power terminals which will be R or RH

And other in W

Make sure if it's low voltage the volatge should be min...

Hi,
Well G is for Fan
And Rc or RH normally is power wires
Y1 is your first stage of cool should go to Y1 and G will go to G
W/B - W/W1


You need to call Hunter and check the functions of...

No need to change the system type can you tell me some improtant information.
Like
1)Voltage across the wires .
2) Wattage
3) Amps

No need to change the system.