Cyclone® V devices support 3.3 V for VCCPGM. However, the .pin file generated by the Quartus® II software does not support this.
Currently, the .pin file only states 1.8 V, 2.5 V, or 3.0 V as supported voltages.
This is only a reporting problem and does not affect device functionality.
The supported voltages for the VCCPGM pin have been updated in the Quartus II software v13.