Here is a list of all file members with links to the files they belong to:

• alignWord() : alignsec.cc
• computeExtendedMatch2() : alignsec.cc
• computeMatchStart() : alignsec.cc
• embedWord() : alignsec.cc
• EQ_EPS : Align.h
• EQUALS : Align.h
• getSecondaryStructureBlockLengths() : alignsec.cc
• getValidSubset() : alignsec.cc
• helpOutput() : alignsec.cc
• main() : subali.cc, maxali.cc, checkprofile.cc, ce2ali.cc, blast2fasta.cc, alitest.cc, alignsec.cc
• operator<<() : Vec.h, Substitution.cc, Blosum.cc
• operator==() : Traceback.h
• operator>>() : Vec.h, Substitution.cc, Blosum.cc
• outList() : Vec.h
• pos : MegaAli.cc
• PSIC_EPS : PSICProfile.h
• readFasta() : alignsec.cc
• readSingleFasta() : alignsec.cc
• sAddLine() : MegaAli.cc, maxali.cc, ce2ali.cc, alignsec.cc
• scoreMatch() : alignsec.cc
• sDoFormat() : MegaAli.cc
• secstructConform() : alignsec.cc
• sRemoveIllegalChars() : Alignment.cc
• sResetPos() : MegaAli.cc
• sSaveClustal() : AlignmentBase.cc
• sSaveMSAF() : Alignment.cc
• sShowHelp() : subali.cc, maxali.cc, checkprofile.cc, ce2ali.cc, blast2fasta.cc, alitest.cc
• sWrite() : MegaAli.cc
• sWriteDot() : MegaAli.cc

---