It's cause by the MIDI in the song creator running
volume through those tracks. Normal behavior.
Notice the tempo change of the "Flashing" from the top
one to the bottom one. It "audio" being created by the MIDI
in the Song Creator playing.
Use the EXACT SAME MIDI in the Host and standalone version
and note if there is a difference...
In the example provided there are two different MIDI Patterns
and apparently different lengths in between hits (not tempo-which I see is 120 for both)