You should have uninstalled LW by using START>Program>Limewire>Uninstall and not by Add/Remove via Control Panel.
Besides, the trojan you mention has nothing to do with LW, it most likely comes with some file you downloaded when using LW.
What you can do now is to search your computer for all files named "limewire" by going to Start>Search>Files and Folders. Delete all files you find.
Then open your registry by Start>Run and typing "regedit". There you go to "Edit>Find" and make also a search with the same query. Delete all keys of limewire.
Afterwards restart your computer and then check your system using any of these programs (I reckon using all of them):
http://www.lavasoftusa.com/software/adaware/(free) http://www.grisoft.com(good free AVG) http://www.ewido.com(>>now called AVG Anti Spyware<< free 30 day trial -the best in my opinion) http://www.ccleaner.com/download/(free) Spybot - Search & Destroy (FREE)
If you can't get rid of the trojan go here and get some free computer help:
http://norbiesworld.co.uk/computerhelp 