The difference is reduced inharmonicity in the bass notes.
A sound we hear as a single pitch is made from multiple different sine waves playing simultaneously, called "partials" in general, or "harmonics" when those sine waves are integer[0] multiples of the lowest frequency, which is called the "fundamental".
In an string instrument, the ends of the strings are fixed in place. This means any standing wave in the string must have "nodes" (points where the wave has zero amplitude) at the ends. When you pluck or strike the string, you induce multiple different standing waves at once. In a mathematically ideal string (modeled with zero thickness), these standing waves are sine waves. Because the ends are always nodes, and because nodes and anti-nodes (points of maximum amplitude) of a sine wave are evenly distributed along the length of the wave, there will always be an integer number of anti-nodes. The frequency of the wave is proportional to the number of anti-nodes, so you end up with a harmonic sound, where the upper partials are integer multiples of the fundamental. Music played in standard Western tuning sounds the most consonant when it uses harmonic sounds.
But a real string instrument is not mathematically perfect. The strings have thickness, which makes them resist bending. Higher frequencies cause sharper bending of the string, so they are more affected by the bending resistance. This results in a standing wave that's very close to a sine wave, but with the end nodes shifted slightly towards the center of the string. The higher harmonics are effectively played on shorter strings, so their frequency is increased. They are no longer integer multiples of the fundamental, so the sound is "inharmonic".
Bass strings are typically thicker, so this effect is most noticeable in the bass. It's a big enough problem in a traditional piano that a special tuning technique ("stretched tuning") is used to try to hide it, but it still results in a kind of muddy/blurred sound. The only alternative to making the bass strings thicker is to make them longer, which is what the the Alexander piano does. The result is an unusual clarity in the bass.
[0] In practice people use "harmonics" to mean approximately integer multiples too.