\begin{Verbatim}[commandchars=\\\{\}]
Alignment length 19
ACTACGACTAGCTCAG\PYGZhy{}\PYGZhy{}G \PYGZhy{} Alpha
ACTACCGCTAGCTCAGAAG \PYGZhy{} XXX

Alignment length 17
ACTACGACTAGCTCAGG \PYGZhy{} Alpha
ACTACGGCAAGCACAGG \PYGZhy{} YYY

Alignment length 21
\PYGZhy{}\PYGZhy{}ACTACGAC\PYGZhy{}\PYGZhy{}TAGCTCAGG \PYGZhy{} Alpha
GGACTACGACAATAGCTCAGG \PYGZhy{} ZZZ
\end{Verbatim}
