I assume you mean you are paying your supplier using ABA payment?
You can a clearing account - this being a Bank Account call it ABA Clearing. you will then need to set this account up as you Electronic Banking Account. When Payments are process the individual entries will show in this clearing you then process a deposit from your Bank account to your ABA Clearing Account which will give you one transaction to reconcile in your bank account.
Your ABA Clearing account should come back to Zero & you will need to reconcile this account also.
If you need further assistance please feel free to drop me a line.