Both should go into the same section. The only thing I would caution you about would be flow. Make sure that your ATO pump is dialed down to a very slow flow rate. Meaning that you only add a bit of water at a time. I originally had a large pump without restrictions and even though it fills up pretty quick, it also often overfilled because of the time it took the sensor to kill the power.
Another benefit of having it fill it up very slowly is that it won't affect parameters by much as it has enough time to mix it up before pushing it back to the tank.
You will find that this is one of the best investments you have made. I love my tank even more after eliminating the daily manual refills.
Good luck!