AAAlignment-class	AAAlignment-class
AAAlphabet-class	AAAlphabet-class
AASequence	AASequence
AASequence-class	AASequence-class
AASequenceList-class	AASequenceList-class
EBLOSUM30	EPAM110
EBLOSUM35	EPAM110
EBLOSUM40	EPAM110
EBLOSUM45	EPAM110
EBLOSUM50	EPAM110
EBLOSUM55	EPAM110
EBLOSUM60	EPAM110
EBLOSUM62	EPAM110
EBLOSUM65	EPAM110
EBLOSUM70	EPAM110
EBLOSUM75	EPAM110
EBLOSUM80	EPAM110
EBLOSUM85	EPAM110
EBLOSUM90	EPAM110
EPAM10	EPAM110
EPAM100	EPAM110
EPAM110	EPAM110
EPAM120	EPAM110
EPAM130	EPAM110
EPAM140	EPAM110
EPAM150	EPAM110
EPAM160	EPAM110
EPAM170	EPAM110
EPAM180	EPAM110
EPAM190	EPAM110
EPAM20	EPAM110
EPAM200	EPAM110
EPAM210	EPAM110
EPAM220	EPAM110
EPAM230	EPAM110
EPAM240	EPAM110
EPAM250	EPAM110
EPAM260	EPAM110
EPAM270	EPAM110
EPAM280	EPAM110
EPAM290	EPAM110
EPAM30	EPAM110
EPAM300	EPAM110
EPAM310	EPAM110
EPAM320	EPAM110
EPAM330	EPAM110
EPAM340	EPAM110
EPAM350	EPAM110
EPAM360	EPAM110
EPAM370	EPAM110
EPAM380	EPAM110
EPAM390	EPAM110
EPAM40	EPAM110
EPAM400	EPAM110
EPAM410	EPAM110
EPAM420	EPAM110
EPAM430	EPAM110
EPAM440	EPAM110
EPAM450	EPAM110
EPAM460	EPAM110
EPAM470	EPAM110
EPAM480	EPAM110
EPAM490	EPAM110
EPAM50	EPAM110
EPAM500	EPAM110
EPAM60	EPAM110
EPAM70	EPAM110
EPAM80	EPAM110
EPAM90	EPAM110
frequency,AASequence-method	AASequence-class
infogrep	readFasta-methods
initialize,AASequence-method	AASequence-class
levels,AAAlphabet-method	AAAlphabet-class
listdist	listdist-methods
listdist,list-method	listdist-methods
listdist-methods	listdist-methods
PAM300	EPAM110
readFasta	readFasta-methods
readFasta,AASequence-method	readFasta-methods
readFasta,AASequenceList-method	readFasta-methods
readFasta-methods	readFasta-methods
salign	salign-methods
salign,AASequence,AASequence-method	salign-methods
salign,AASequence,AASequenceList-method	salign-methods
salign,AASequenceList,AASequence-method	salign-methods
salign,AASequenceList,NULL-method	salign-methods
salign-methods	salign-methods
selfalign	AASequence-class
selfalign,AASequence,Submatrix-method	AASequence-class
seqgrep	readFasta-methods
sequlist	sequlist
show,AAAlignment-method	AAAlignment-class
show,AAAlphabet-method	AAAlphabet-class
show,AASequence-method	AASequence-class
show,Submatrix-method	Submatrix-class
subFromEmboss	Submatrix-class
subFromEmboss,Submatrix,character-method	Submatrix-class
Submatrix	Submatrix-class
Submatrix-class	Submatrix-class
summary,AAAlignment-method	AAAlignment-class
testalign	testalign-methods
testalign,AASequence,AASequence-method	testalign-methods
testalign-methods	testalign-methods
[,AASequenceList-method	AASequenceList-class
[<-,AASequenceList-method	AASequenceList-class
[[<-,AASequenceList-method	AASequenceList-class
