You can pay online through mycic account.
To pay your fees you will need:
a Visa®, MasterCard® or American Express® credit card or
a debit card issued from a Canadian Financial Institution such as BMO, TD, Scotia Bank or RBC.
Please follow the link below,
http://www.cic.gc.ca/english/information/fees/result.asp?countrySelect=CA&lob=eepr