The markings on the guitar (& banjo) are a relic of the early instruments such as Lute & Guitar where there was a hole drilled thro' the kneck through which a wooden "T" shaped peg was put and tightened down and was the fore runner of the modern Capo. These were placed normally at the third & fifth frets but could be different at individuals specification.
My owm instruments seem to correspond to what you all have been saying but I never use them as markers only as decoration which I believe is now their only purpose. Hope this helps
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sj