=      !"#$%&'()*+,-./0123456789:;< Safe-Inferred6Data structure for structural Clustal alignment format+Data structure for Clustal alignment format,lData type for clustal summary, containing information about the alignment process, usually printed to STDOUT7  !"#$%&'()*+,-./01234567  !"#$%&'()*+,-./0123456    !"#$%&'()*+, -./0123456 Safe-Inferred =*Parse the input as ClustalSummary datatype>,Parse the input as ClustalAlignment datatype?@Parse the input as ClustalAlignment datatype as used in mlocarna7*Parse Clustal alignment (.aln) from String8@Parse Clustal alignment (.aln) from filehandle 9uParse Clustal alignment (.aln) with secondary structure in dot-bracket notation from String (as produced by mlocarna):Parse Clustal alignment (.aln) with secondary structure in dot-bracket notation from filehandle (as produced by mlocarna) ;5Parse Clustal summary (printed to STDOUT) from String<3Parse Clustal summary (printed to STDOUT) from file@A=BCD>EFGH?IJKLMNOP789:;<=  !"#$%&'()*+,-./0123456789:;<=789:;<,-./0123456'()*+"#$%& !  @A=BCD>EFGH?IJKLMNOP789:;<Q       !!"#$%%&'()*+,-./0123456789:;<=>?@ABCDEFGHIClustalParser-1.0.2Bio.ClustalParserBio.ClustalData$StructuralClustalAlignmentEntrySlice&structuralEntrySequenceSliceIdentifier#structuralEntryAlignedSliceSequenceStructuralClustalAlignmentSlicestructuralEntrySlicesStructuralClustalAlignmentstructuralAlignmentEntriessecondaryStructureTrackenergyClustalAlignmentEntrySliceentrySequenceSliceIdentifierentryAlignedSliceSequence spacerLengthClustalAlignmentSlice entrySlicesconservationTrackSliceClustalAlignmentEntryentrySequenceIdentifierentryAlignedSequenceClustalAlignmentalignmentEntriesconservationTrack GroupSummaryalignmentGroupIndexnumberOfAlignedSequences groupScorePairwiseAlignmentSummaryfirstSequenceIndexsecondSequenceIndexpairwiseAlignmentScoreSequenceParametersinputSequenceIndexinputSequenceIdentifierinputSequenceLengthClustalSummaryclustalw2versionsequenceFormatparametersOfInputSequencespairwiseAlignmentSummariesguideTreeFileName groupNumbergroupSummariesalignmentScorealignmentFileNameparseClustalAlignmentreadClustalAlignmentparseStructuralClustalAlignmentreadStructuralClustalAlignmentparseClustalSummaryreadClustalSummarygenParserClustalSummarygenParserClustalAlignment#genParserStructuralClustalAlignment readDoublereadIntgenParserGroupSummary!genParserPairwiseAlignmentSummarygenParserSequenceParametersmergealignmentSlicesconstructAlignmentEntriesgenParserClustalAlignmentSlicegenParserClustalEntrySlicegenSecondaryStructuregenParseEnergygenParseMlocarnaHeadergenParseAlignmentProcessStepmergeStructuralAlignmentSlices#constructStructuralAlignmentEntries(genParserStructuralClustalAlignmentSlice$genParserStructuralClustalEntrySlice