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I'm not sure if I understand your query correctly. Do you want to send a customized PDF with your notification email? If so, you can customize the PDF from the submissions view.
Then, you may attach the PDF to your notification from the Email setup wizard.
This would send the customized PDF to your notification when the form is submitted.
Hope this information helps. If you are referring to something different, please let us know. We will be happy to help.