The manage money options are listed on the Money > Bank accounts menu and can be used for each bank account you have created within Clear Books. 

Once you click on either the Money in, Money out or Transfer links you will be required to fill in a quick form to enter the date amount and description of the payment. 

Clicking on the Explain button will take you to the explain screen where you will be able to select a contact, account code, VAT rate, etc. You can learn more about the explain process by clicking on the link here.