%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% %%%%% %%%%% %%%%% Ciliate macronuclear genetic code definitions %%%%% %%%%% %%%%% %%%%% Only exchanges compared to the standard code must be defined. %%%%% %%%%% %%%%% %%%%% (The last codon of the list is used for backtranslations %%%%% %%%%% from protein to DNA sequences---therefore the wobbles) %%%%% %%%%% %%%%% %%%%% %%%%% %%%%% Activate these definitions for your alignment by the following %%%%% %%%%% command in the texshade environment: %%%%% %%%%% %%%%% %%%%% \geneticcode{ciliate} %%%%% %%%%% %%%%% %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%% \codon{Q}{TAA,TAG,UAA,UAG,YAR}