Please check this section in the same link. See in the Pagination tab you can do something.
The below section from the link tells that it takes first master page for header, footer, etc. In the pagination you can select the other master pages for placing panel, etc.
The first master page in the base template is copied and used as a master page for the document of record, which contains header, footer, page number, or any other information that should appear across all pages in the document of record.