One area that Xero users do get stumped with, is how to reconcile transfers of money going from one bank account to another bank account. In Xero there is a tab in the reconcile screen called "transfer". This allows you to transfer that money to the other business account.
Note - this is only to be used if the other account you're transferring money to is in Xero.
QUICK TIP: If you're transferring money from one account to another often, such as paying off a loan, Xero have recently released the transfer rule function just like bank rules.
If you're a RightWay customer and have any questions please contact your RightWay accountant, email email@example.com or call 0800 555 024