treejack tree-test – pages that are not in main navigation (access from in-page links)

I'm planning a tree test using Treejack. I'm testing the current nav structure of a site to gain insight before re-designing the site including nav and structure.

The site in question has ~150 pages. ~30 of those are not in the current navigation hierarchy, but are accessed via on-page links within page content. Some are linked to from multiple pages.

Question is how could I represent these in the tree test? What is you experience with similar structures?

For info, the top horizontal nav is used for for level 1, left nav for levels 2, 3, 4.