BioInt  1.02.00
BioInt: An integrative biological object-oriented application framework and interpreter
BioDnaSequenceLocalAlignment Member List
This is the complete list of members for BioDnaSequenceLocalAlignment, including all inherited members.
BioDnaSequenceAlignment()BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string, string, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment()BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string, string, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment()BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string, string, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment()BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string, string, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment()BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, BioDnaSequence, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioDnaSequence, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, BioGenBank, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioGenBank, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioFasta, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string, string MatName, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, BioEmbl, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(BioEmbl, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string, string, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, string mat="IDENTITY", int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceAlignment(string, string, int MS, int MMS, int GP=-11, int extn=-9999)BioDnaSequenceAlignment [protected]
BioDnaSequenceLocalAlignment()BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioDnaSequence, BioDnaSequence, string, string MatName, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioDnaSequence, string, string, string MatName, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioDnaSequence, BioDnaSequence, string mat="IDENTITY", int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioDnaSequence, string, string mat="IDENTITY", int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioDnaSequence, BioDnaSequence, int MS, int MMS, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioDnaSequence, string, int MS, int MMS, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioFasta, BioFasta, string, string MatName, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioFasta, string, string, string MatName, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioFasta, BioFasta, string mat="IDENTITY", int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioFasta, string, string mat="IDENTITY", int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioFasta, BioFasta, int MS, int MMS, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(BioFasta, string, int MS, int MMS, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(string, string, string, string, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(string, string, string mat="IDENTITY", int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
BioDnaSequenceLocalAlignment(string, string, int MS, int MMS, int GP=-50, int extn=-9999)BioDnaSequenceLocalAlignment
formScoringMatrix()BioDnaSequenceAlignment [protected]
formScoringMatrix()BioDnaSequenceAlignment [protected]
formScoringMatrix()BioDnaSequenceAlignment [protected]
formScoringMatrix()BioDnaSequenceAlignment [protected]
formScoringMatrix()BioDnaSequenceAlignment [protected]
gapExtnBioDnaSequenceAlignment [protected]
gapPenaltyBioDnaSequenceAlignment [protected]
getAccValMov(long, long, int)BioDnaSequenceAlignment [protected]
getAccValMov(long, long, int)BioDnaSequenceAlignment [protected]
getAccValMov(long, long, int)BioDnaSequenceAlignment [protected]
getAccValMov(long, long, int)BioDnaSequenceAlignment [protected]
getAccValMov(long, long, int)BioDnaSequenceAlignment [protected]
getAlignedSequence1()BioDnaSequenceLocalAlignment
getAlignedSequence2()BioDnaSequenceLocalAlignment
getIdentity()BioDnaSequenceLocalAlignment
getNumberOfIdentities()BioDnaSequenceLocalAlignment
getScore()BioDnaSequenceLocalAlignment
getSequence1AlignedPosition()BioDnaSequenceLocalAlignment
getSequence2AlignedPosition()BioDnaSequenceLocalAlignment
nucleicAcidSeqBioDnaSequenceAlignment [protected, static]
outSeq1_BioDnaSequenceAlignment [protected]
outSeq2_BioDnaSequenceAlignment [protected]
seq1_BioDnaSequenceAlignment [protected]
seq2_BioDnaSequenceAlignment [protected]
seqName1_BioDnaSequenceAlignment [protected]
seqName2_BioDnaSequenceAlignment [protected]
setGapPenalty(int GP=-11, int extn=-9999)BioDnaSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioDnaSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioDnaSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioDnaSequenceAlignment
setGapPenalty(int GP=-11, int extn=-9999)BioDnaSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioDnaSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioDnaSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioDnaSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioDnaSequenceAlignment
setMatchMisMatchScore(int MS=1, int MMS=0)BioDnaSequenceAlignment
setSequence1(BioDnaSequence)BioDnaSequenceAlignment
setSequence1(BioGenBank)BioDnaSequenceAlignment
setSequence1(BioFasta)BioDnaSequenceAlignment
setSequence1(BioEmbl)BioDnaSequenceAlignment
setSequence1(string)BioDnaSequenceAlignment
setSequence1(BioDnaSequence)BioDnaSequenceAlignment
setSequence1(BioGenBank)BioDnaSequenceAlignment
setSequence1(BioFasta)BioDnaSequenceAlignment
setSequence1(BioEmbl)BioDnaSequenceAlignment
setSequence1(string)BioDnaSequenceAlignment
setSequence1(BioDnaSequence)BioDnaSequenceAlignment
setSequence1(BioGenBank)BioDnaSequenceAlignment
setSequence1(BioFasta)BioDnaSequenceAlignment
setSequence1(BioEmbl)BioDnaSequenceAlignment
setSequence1(string)BioDnaSequenceAlignment
setSequence1(BioDnaSequence)BioDnaSequenceAlignment
setSequence1(BioGenBank)BioDnaSequenceAlignment
setSequence1(BioFasta)BioDnaSequenceAlignment
setSequence1(BioEmbl)BioDnaSequenceAlignment
setSequence1(string)BioDnaSequenceAlignment
setSequence1(BioDnaSequence)BioDnaSequenceAlignment
setSequence1(BioGenBank)BioDnaSequenceAlignment
setSequence1(BioFasta)BioDnaSequenceAlignment
setSequence1(BioEmbl)BioDnaSequenceAlignment
setSequence1(string)BioDnaSequenceAlignment
setSequence2(BioDnaSequence)BioDnaSequenceAlignment
setSequence2(BioGenBank)BioDnaSequenceAlignment
setSequence2(BioFasta)BioDnaSequenceAlignment
setSequence2(BioEmbl)BioDnaSequenceAlignment
setSequence2(string)BioDnaSequenceAlignment
setSequence2(BioDnaSequence)BioDnaSequenceAlignment
setSequence2(BioGenBank)BioDnaSequenceAlignment
setSequence2(BioFasta)BioDnaSequenceAlignment
setSequence2(BioEmbl)BioDnaSequenceAlignment
setSequence2(string)BioDnaSequenceAlignment
setSequence2(BioDnaSequence)BioDnaSequenceAlignment
setSequence2(BioGenBank)BioDnaSequenceAlignment
setSequence2(BioFasta)BioDnaSequenceAlignment
setSequence2(BioEmbl)BioDnaSequenceAlignment
setSequence2(string)BioDnaSequenceAlignment
setSequence2(BioDnaSequence)BioDnaSequenceAlignment
setSequence2(BioGenBank)BioDnaSequenceAlignment
setSequence2(BioFasta)BioDnaSequenceAlignment
setSequence2(BioEmbl)BioDnaSequenceAlignment
setSequence2(string)BioDnaSequenceAlignment
setSequence2(BioDnaSequence)BioDnaSequenceAlignment
setSequence2(BioGenBank)BioDnaSequenceAlignment
setSequence2(BioFasta)BioDnaSequenceAlignment
setSequence2(BioEmbl)BioDnaSequenceAlignment
setSequence2(string)BioDnaSequenceAlignment
setSubstitutionMatrix(string)BioDnaSequenceAlignment
setSubstitutionMatrix(string, string)BioDnaSequenceAlignment
setSubstitutionMatrix(string)BioDnaSequenceAlignment
setSubstitutionMatrix(string, string)BioDnaSequenceAlignment
setSubstitutionMatrix(string)BioDnaSequenceAlignment
setSubstitutionMatrix(string, string)BioDnaSequenceAlignment
setSubstitutionMatrix(string)BioDnaSequenceAlignment
setSubstitutionMatrix(string, string)BioDnaSequenceAlignment
setSubstitutionMatrix(string)BioDnaSequenceAlignment
setSubstitutionMatrix(string, string)BioDnaSequenceAlignment
showAccumulationMatrix(ostream &=cout)BioDnaSequenceLocalAlignment
showAlignment(ostream &=cout)BioDnaSequenceLocalAlignment
showScoringMatrix(ostream &=cout)BioDnaSequenceAlignment
showScoringMatrix(ostream &=cout)BioDnaSequenceAlignment
showScoringMatrix(ostream &=cout)BioDnaSequenceAlignment
showScoringMatrix(ostream &=cout)BioDnaSequenceAlignment
showScoringMatrix(ostream &=cout)BioDnaSequenceAlignment
statusBioDnaSequenceAlignment [protected]
substitutionMatrixBioDnaSequenceAlignment [protected]
tempMatrixBioDnaSequenceAlignment [protected]
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