Delete the bill entry AND if you have already added the expense to the correct expense account you are good. If not, then add the expense from your bank feed. Bills are manually entered and then selected for payment by whatever means you choose. You can "also" match a transaction that comes through your bank feed to a bill and simply identify the payment as "online" or "ACH".
I add taxes that are due at a later date as bills, then when the electronic payments come through the bank feed I simply match them to the bills and note them as "Online" payments referencing the payment date. This helps me identify if an electronic payment did not get processed for some reason.
