We would like to reassure you in advance: this is normal.
The software system with which Peppol documents are sent will ask the sender to enter a company number before sending. The software system will then search the database for the Peppol ID containing the company number.
However, some senders may not have the company number of the recipient and will then look up the company in the Peppol database based on the VAT number.
Thanks to these two registrations, senders of invoices can always use either the company number or VAT number to find a company in the Peppol database.