Hi Roger,
Yes you are correct - they should match.
Have you checked that your date range is correct in the BAS report? Then you will want to check that you have also correctly coded the BAS tax items by clicking on the G1 icon, etc.
I have a document I can email you if you want to check the configuration.
Feel free to email me directly at sally@samsolutions.com.au if you need further assistance!
Kind regards, Sally