# EXAMPLE definition file # For ORTHOGRAPIC data # Default values for: substitution indel modifier DEFAULTS 2.0 1.0 0.5 # First letter of each pair is replaced by second letter EQUI Aa Bb Cc Dd Ee Ff Gg Hh Ii Jj Kk Ll Mm Nn Oo Pp Qq Rr Ss Tt Uu Vv Ww Xx Yy Zz Àà Áá Ââ Ãã Ää Åå Ææ Çç Èè Éé Êê Ëë Ìì Íí Îî Ïï Ðð Ññ Òò Óó Ôô Õõ Öö Øø Ùù Úú Ûû Üü Ýý Þþ # This: a{bc}d # will tokenize as: a b{ c{ d # Mismatch of paren should cause error PAREN # Characters in all following definitions can be written by itself or numerically # These are the same: a 97 0x61 U+0061 # This: ab~c # will tokenize as: a b~ c # Modifiers not after head should cause error MOD # Indels with non-default values # Characters can be in only one set INDEL 0.0 32 INDEL 0.5 - " ' # Substitution sets with non-default values # Characters can be in multiple sets # Order is importent, first matching set is used SUBST 0.5 f v SUBST 0.5 v w SUBST 0.5 t d SUBST 0.5 p b SUBST 0.5 k g SUBST 0.5 n m SUBST 0.5 r l SUBST 0.5 s z SUBST 1.0 b d c f g h j k l m n p q r s t v w x y z ç ð ñ þ SUBST 1.0 a e i o u y à á â ã ä å æ è é ê ë ì í î ï ò ó ô õ ö ø ù ú û ü ý # all remaining characters are treated as heads with default subst value # END