In the "Show vote summaries" tab, in the timeline of Please revert the line-height change!, I noticed that the daily vote summary included bookmarks:
Why are they there? Do they count as part of the daily vote summary?
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Yes, setting a bookmark (called Favorite earlier) is a Vote. As such it is stored in the Votes table with a Votetypeid of 5.
You can also find those in SEDE:
SELECT * FROM VoteTypes
The added value of having those Votes in SEDE as well is that you can list which users bookmarked that question. That is something the timeline will not tell you.