If you don't have enough low end, change your amp.
An E0 is going to have the same frequency no matter what instrument you play as long as it is in tune.
^ This. [EDIT: well, since we're not discussing Bösendorfers or organs I assumed you meant E1...

]
@jordanl92: for all you know, the GuitarBass might be too
strong in the lows. Nothing points out to bass-shyness in the way it's constructed, except for the fact that it's visually a guitar, only longer, and we associate those with plinky sounds.
Let's break it down further:
1) short scale? Same scale as short-scale 4-stringers, and plenty bassists use them successfully;
2) guitar tuners? Ditto (see Danelectros and Höfners), and of course you don't expect tonal repercussions out of those;
3) number of strings? Does the high C on a regular 6-string bass weaken the tone of its lowest cousins, just because of it being there?
4) tuning? Abraham Laboriel tunes his (long-scale, wide-spaced) sixes E to E, and again I doubt this fact magically sucks the lows out of the lowest four;
5) narrow spacing? If you use regular two-finger pizz on a VI (I do) the shorter...run-up available might make you lose some of the attack you have on a 4-banger - then again, not everyone spanks the strings like they owe him money, even on a normal bass (same thing for pick playing: do you almost reach the next string when you play a Precision with a pick? If you don't you probably won't notice tonal differences solely due to narrow spacing on a VI);
6) string gauge? Why, just use thicker strings;
7) more to the point, guitar pickups? A number of instruments commonly understood to be basses use guitar pickups, with or without an adjustment to the number of polepieces: the above-mentioned Danelectros and Höfners, and also Rickenbackers. There is the chance you may not like the sound, but the same applies to every bass out there until you take it out for a fair spin.
As for pickup position, there are three of them on the Harley Benton: there's a fighting chance at least one of the combinations does the trick.
Also, don't judge a VI from a YouTube demo: chances are it's been recorded through a guitar amp, and especially speaker. Signal chain is paramount. Also also, amps have EQ: don't be afraid to use it.