\begin{Verbatim}[commandchars=\\\{\}]
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{k+kn}{from} \PYG{n+nn}{Bio.Align.Applications} \PYG{k+kn}{import} \PYG{n}{MuscleCommandline}
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{n}{muscle\PYGZus{}cline} \PYG{o}{=} \PYG{n}{MuscleCommandline}\PYG{p}{(}\PYG{n}{clwstrict}\PYG{o}{=}\PYG{k+kc}{True}\PYG{p}{)}
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{n+nb}{print}\PYG{p}{(}\PYG{n}{muscle\PYGZus{}cline}\PYG{p}{)}
\PYG{g+go}{muscle \PYGZhy{}clwstrict}
\end{Verbatim}
