Hi Greg_Shipp
Any general journals will not be included in any payroll reports, nor be sent to ATO via Single Touch Payroll.
Typically all payroll figures should be recorded as payroll transactions. If you wish to change the accounts posted to please go to Setup > Linked accounts > Payroll Accounts, where the default accounts are set. The respective bank account will be used based on the payment method of the pay run. Changing linked accounts will not affect transactions already recorded, I'd also recommend double checking with your accountant for the correct linked accounts for your business set up before making changes.