+ string getHelpString();
+ string getOutputPattern(string);
+ string getCitation() { return "http://www.mothur.org/wiki/Align.check"; }
+ string getDescription() { return "calculate the number of potentially misaligned bases in a 16S rRNA gene sequence alignment"; }
+
+
+ int execute();
+ void help() { m->mothurOut(getHelpString()); }
+