/ . / MultAlignViewer / structAssoc.py / Matchup 

When done, self.best will either be None or a 3-tuple. If None, then no stretch of at least minStretch matches were found. A 3-tuple indicates the best match match. The components of the 3-tuple are (offset, start, stretch):

offset: offset into aseq for matchup of mseq

start: offset into mseq where stretch of matches found

stretch: length of consecutive matches found

simpleLoop ( self,  offset )

strideLoop (
        self,
        offset,
        best=None,
        startIndex=0,
        )

__init__ (
        self,
        aseq,
        mseq,
        minStretch,
        )