Yep, these are all conventions used in hand-written Latin texts of the time. I believe the 9-looking mark is short for "us" at the end of a word. See the top of the right column on that page: "Et vidit de9 qd esset" where "de9" is "deus" and "qd" is "quod" (cf. http://www.latinvulgate.com/verse.aspx?t=0&b=1).