The mic supplied is probably specifically tuned for the signal generated by the auto setup program. Depending on the specific frequency of that signal the mic might not cover the range that the EQ system can. Keep in mind the auto setup program is pretty basic and usually only determines speaker size and distance not full frequency capability.
_________________________
Music system Model 990/7500/Magnepan 1.6 QRs/Technics SL1200 MK2/Aperion S-12 Subwoofer/OWA3/Sony NS75H DVD APC H15 Power Conditioner
TV System Large Advent Loudspeakers/ Polk center/Monoprice surrounds/Panasonic Viera 42 inch/Onkyo HT-RC260/Sony BDP S590/Directv
Home Theater System Onkyo PR-SC886/Outlaw 7125 Klipsch RF-82 L/R,RC-62 center, RB-35 SR/SL, BENQ HT1075, Outlaw LFM1-EX/OPPO BDP-83/Directv Harmony ONE Blue Jeans and Monoprice interconnects APC H15 Power Conditioner