What you are hearing is the Kick hitting simultaneously with the C# (A string 4th fret) on the Bass.
The low tuning of the Kick happens to coincidentally reinforce that particular note creating the illusion of the note an octave below, but the Bass is not playing a Low C# below the range of a a normal 4 string bass.
So the three notes are (ascending) A C# D in the normal range of a 4 string.
Here is a clip from the Remastered version with the bass emphasized and the kick de-emphasized, and the track slowed down a bit.
I'm convinced. Thanks, ddnidd1. I guess Jesse Gresse, who did the BP transcription, was fooled too.
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