lucy24 - 10:36 pm on Mar 6, 2013 (gmt 0)
I am wondering if anchor links (those with # sign in them) on a website are counted as part of the total number of internal links on a website.
I don't know if this answers your question, but if you look at the Anchor Text area in wmt, there are three different things thrown together in the same "How your data is linked" list. Anchor text from outside; linking text from your own navigation; linking text from intenal # links. You can't tell which is which unless you already know.
It would be interesting to know whether there's any difference between external links to a page, and external links to a named # anchor. But I don't think there is any way to find out unless they see fit to put out a video that says so.
Wouldn't you think they could at least color code the different categories? It would be phenomenally useful to see at a glance if the text other people are using to link to you is consistently different from the text you use to link to yourself. ("I'm the world's leading authority on blue widgets? Dang. I thought this page was about small furry widgets of all colors.")