Outgroup in phylogenetic tree

[Daigoro]

Hello all!
I have this problem of constructing a tree which has an outgroup. The ingroup are a family of fungal proteins and the outgroup are proteins from animals. But I can't create a tree showing that the outgroup is really an outgroup, since when I include the outgroup sequences in the multiple alignment and make the tree they always appear closer to some of the ingroup members than some other ingroup members.

Can we manually add an outgroup into already constructed tree and designate them as an outgroup?
Thanks!

[Astarte]

Which protein sequences are you using? Have you looked into detail at the sequences in the multiple alignment? If the sequences of your outgroup are indeed more similar to certain ingroup members, you will never get a tree with the outgroup as outgroup. Based on the protein you are using this might be the result of divergent followed by convergent evolution. Are you making the alingment and tree based on protein sequences or DNA sequences? if you are using DNA, you might want to consider switching to protein as there, the silent mutations will not be considered in the calculation of the similarity.