\begin{Verbatim}[commandchars=\\\{\}]
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{k+kn}{from} \PYG{n+nn}{Bio} \PYG{k+kn}{import} \PYG{n}{AlignIO}
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{n}{alignments} \PYG{o}{=} \PYG{n}{AlignIO}\PYG{o}{.}\PYG{n}{parse}\PYG{p}{(}\PYG{l+s+s2}{\PYGZdq{}PF05371\PYGZus{}seed.sth\PYGZdq{}}\PYG{p}{,} \PYG{l+s+s2}{\PYGZdq{}stockholm\PYGZdq{}}\PYG{p}{)}
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{n}{count} \PYG{o}{=} \PYG{n}{AlignIO}\PYG{o}{.}\PYG{n}{write}\PYG{p}{(}\PYG{n}{alignments}\PYG{p}{,} \PYG{l+s+s2}{\PYGZdq{}PF05371\PYGZus{}seed.aln\PYGZdq{}}\PYG{p}{,} \PYG{l+s+s2}{\PYGZdq{}clustal\PYGZdq{}}\PYG{p}{)}
\PYG{g+gp}{\PYGZgt{}\PYGZgt{}\PYGZgt{} }\PYG{n+nb}{print}\PYG{p}{(}\PYG{l+s+s2}{\PYGZdq{}Converted }\PYG{l+s+si}{\PYGZpc{}i}\PYG{l+s+s2}{ alignments\PYGZdq{}} \PYG{o}{\PYGZpc{}} \PYG{n}{count}\PYG{p}{)}
\PYG{g+go}{Converted 1 alignments}
\end{Verbatim}
