My server refuses connections from remote

We have a small office server for filing and accessing those files from home.  I recently had a redirect virus on my computer, even after a fresh install it was still there, so I looked around and found some website (I think it was dwcg.org),  I guess it was a DNS changer virus.  It was keeping me from connecting to anything that had to do with google.  I used some Norton program that this dwcg site redirected me too.  And it worked, so I thought I had no more redirection, it seemed to attached itself to google, I haven't been redirected anymore.  Well now to my server problem, I set my server to have webaccess through its brand website (buffalonas.com). 

It is a Buffalo NAS LS-WV6.0TL/R1, whenever I tried to access the server from the site I get Internet Explorer cannot display the webpage, same as I did with google.  I diagnose the connection problem and it tells me it is my server refusing the connection.  I checked the ports in my router (Linksys E4200) and the two ports I normally use 9000 and 9001 don't exist anymore.  I can't even locate them.  Even the ones I set as the open ports my server still refuses to connect to the remote FTP site.  It is just my server because I can type in another server and it will connect.  Do I have a similiar virus that has attached itself to my server or what!  Just asking for some help here and can I protect my server with protection?

We have a small office server for filing and accessing those files from home.  I recently had a redirect virus on my computer, even after a fresh install it was still there, so I looked around and found some website (I think it was dwcg.org),  I guess it was a DNS changer virus.  It was keeping me from connecting to anything that had to do with google.  I used some Norton program that this dwcg site redirected me too.  And it worked, so I thought I had no more redirection, it seemed to attached itself to google, I haven't been redirected anymore.  Well now to my server problem, I set my server to have webaccess through its brand website (buffalonas.com). 

It is a Buffalo NAS LS-WV6.0TL/R1, whenever I tried to access the server from the site I get Internet Explorer cannot display the webpage, same as I did with google.  I diagnose the connection problem and it tells me it is my server refusing the connection.  I checked the ports in my router (Linksys E4200) and the two ports I normally use 9000 and 9001 don't exist anymore.  I can't even locate them.  Even the ones I set as the open ports my server still refuses to connect to the remote FTP site.  It is just my server because I can type in another server and it will connect.  Do I have a similiar virus that has attached itself to my server or what!  Just asking for some help here and can I protect my server with protection?