Another clue will be, if in the 800mhz band, you want the higher of the pair. 800mhz repeaters are always -45mhz offset for "input"
So if you have 821.0125 and 866.0125, you want 866.0125.
If I read this thread right, there's a bt of confusion on the parts of some folk here.
"Input" in the terms of RR.com is, as far as I understand it, the frequency that the radios transmit to the repeater and/or trunk system. This comes into the trunk system before being strengthened and broadcast over the entire area, hence the name "Input".
Why we have space for input frequencies is something I'm not sure of. I generally don't include them when I post systems, because the only reason I can see for having input freqs is to get on the system and use it - which scanner uses shouldn't be doing.
The confusion with TX/RX is that a lot of people (myself included) think of these in terms of the end radio user. To me, using the example above, RX is 866.0125, because that is the frequency the end user is receiving. TX is 821.0125, because that is the frequency the end user in transmitting upon.
However, if you think like a tower/infrastructure guy, you think exactly the opposite, because the tower is receiving 821.0125 (which the end user is transmitting), and the tower then boosts that signal and transmits it out on 866.0125, which is what the end user is receiving.
End result: You want the frequency that the end users receive on. However you want to describe that, that's what you're looking for.