It's pretty standard. You've got the same width pickups in all positions, but you can see that the string spacing increases as it gets nearer the bridge, so the strings will pass over the pickups at different positions for each pickup. Some pickup sets will have a slightly narrower string spacing for the neck pickup poles than the other two.
Here's a pic of a USA Strat. It's got exactly the same issue, as do almost all Strats. Blame Leo Fender for cutting down on cost and variation by making all the pickups the same size, despite the differing string widths and the angled bridge pickup narrowing the string to string spacing of the poles.
I know you're just testing things out at the moment, but in the photos, the high E is slightly closer to the fretboard edge than the bottom E, which exacerbates the pole positioning difference. You'll want to fix the bridge laterally so that the strings run equidistant from each edge of the fretboard. This will help with the visual aspect. You'll also probably have some slight side-to-side movement of the neck in its pocket to play with, which can be used to help line up the strings with the fretboard edges before tightening the neck mounting screws.
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