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Trojans can go through firewalls too .. the firewall can only prevent attacks from outside, not from within .. the trojan has basically openned up means of moving relevant traffic through ports.
Delete the files pertaining to the trojan
rebuild your IP stacks
Get your comp checked by at least 2 a.virus programs
research the trojan that affected you .. find out what port was used to allow traffic in.
set your firewall to trap and log traffic to the ports defined by that trojan. [make sure that u identify if any other progs use it]
contact system administrator of trojan user if possible
FIND OUT HOW YOU GOT INFECTED IN THE FIRST PLACE
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