Its better if you can attach screenshot of your selected directories (to see how you selected them).

To scan files only in that directory level, you have to do it manually. You can’t use selected folder menu anyway. Just go to specific directory and select all (Ctrl + A), and Click on unwanted files/folders you may need to exclude from scan while pressing Ctrl key. Then right click on remaining selected files/folders you wanna scan and click ‘Scan selected items for virus’.

Hope this will help somewhat.

Cheers…