addHeaders ( self,  headers )

headerDisplayOrder ( self )

bboxList (
        self,
        line1,
        line2,
        pos1,
        pos2,
        coverGaps=True,
        )

return coords that bound given lines and positions

showHeaders ( self,  headers )

updateNumberings ( self )

setRulerDisplay ( self,  showRuler )

layout ( self )

seeBlocks ( self,  blocks )

scroll canvas to show given blocks

clustalConsensusChars ( self,  offset )

addSeqs ( self,  seqs )

realign (
        self,
        seqs,
        offset=None,
        )

__init__ (
        self,
        parent,
        mav,
        seqs,
        )

destroy ( self )

saveEPS (
        self,
        fileName,
        colorMode,
        rotate,
        extent,
        hideNodes,
        )

hideHeaders ( self,  headers )

boundedBy (
        self,
        x1,
        y1,
        x2,
        y2,
        )

return lines and offsets bounded by given coords

showNodes ( self,  show )

assocSeq ( self,  aseq )

alignment sequence has gained or lost associated structure

setColorFunc ( self,  coloring )

setClustalParams (
        self,
        categories,
        colorings,
        )

recolor ( self,  seq )

deleteHeaders ( self,  headers )

usePhyloTree (
        self,
        tree,
        callback=None,
        )

shouldWrap ( self )

refresh (
        self,
        seq,
        left=0,
        right=None,
        updateAttrs=True,
        )

setRightNumberingDisplay ( self,  showNumbering )

setLeftNumberingDisplay ( self,  showNumbering )

lineWidthFromPrefs ( self )

activeNode ( self )