Your eyes get faster in due time.
The distance between the notes is also important. Trying to "snap my eyes" to notes which are already close together feels like I'm going squint and it's really unnecessary to do, since I can already see the notes just fine, as per your examples. What you are likely having problems with is coordinating your reading with your aim. Smaller movements are difficult to do fast, because your hand still obeys the laws of physics and needs to accelerate to produce movement. Over such small distances this usually means you spend all your time accelerating to the "snap speed" and are never actually snapping, so your movements become a flowy mess. But your hand also gets faster in due time. In such situations it depends on the BPM whether I try to snap, but the higher the BPM, the more likely I am to "flow" my movements in your example.
Practically it is much more complicated than that though:
Because your example is not uniform distance, I will read it as 6 separate patterns (3,3,1,3,2,1 from left-to-right), which means my eyes will focus on each group separately, and only snap to the notes between each "visual pattern set" that I recognise, "flowing" the groups of notes, snapping to individuals and between them, etc. I hope that makes sense.
If the notes are a medium distance (1/3-1/2 of screen apart), then it's comfortable to do "eye-snapping" with my "note-snapping", and beneficial to do so. If they are full screen jumps then I typically have "eye-stamina" problems if there are too many in a row, but I try to focus on as many as I can before using peripheral vision.
TL;DR play the game and let your sub-conscious figure it out for you based on your abilities at present, which will improve over time.