The GenCore software package by Biocceleration performs sequence alignment. One of the oddities about the output is that rather than reporting a % Identity, it outputs something called "% Query match".

This value seems to be very close to, but not quite the same, as the expected Matches/Length_Of_Alignment calculation used by EMBOSS in NEEDLE, or blastp.

For example, an alignment with 127 length and 103 matches gets a "% Query match" of 80.9%, while the percent identity should be 103/127=81.1%

I can't find any documentation about this online, so I was hoping someone had some experience with this software and could explain how the calculation is performed.