úÎ9F3@_      !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^  Safe-Inferred5Data structure for (sub-) optimal interaction region ƒData structure for individual interaction between a target and query nucleic acid seqence, contains all (sub)-optimal interactions      Safe-Inferred_4Parse the input as list of RNAupInteraction datatype`,Parse the consenus of RNAup results aParse a RNAupInteractionRegion#parse RNAupOutput from input string/parse from input filePath bc_`a bc_`a Safe-InferredData structure Safe-Inferredd+Parse the consenus of RNAz results *parse RNAdistance output from input stringBparse RNAdistance output from input filePath eded Safe-InferredªData structure corrsponds with alifoldoutput redirected to file. Output written directly to commandline also contains number of sequences and length of consensus sequence    Safe-Inferredf+Parse the consenus of RNAz results !)parse RNAalifold output from input string"Aparse RNAalifold output from input filePath gf!"  !"gf!" Safe-Inferred#YData structure for individual interaction between a target and query nucleic acid seqence#$%&'(#$%&'(#$%&'(  Safe-Inferredh+Parse the consenus of RNAz results )&parse RNAfold output from input string*>parse RNAfold output from input filePath ih)*#$%&'()*ih)*  Safe-Inferred+IDatatype contains all elements for the consenus result of input alignment/XDatatype contains all result elements for each member of the input alignment 7;All elements of RNAz output are contained in this datatype #+,-./0123456789:;<=>?@ABCDEFGHIJKLM#+,-./0123456789:;<=>?@ABCDEFGHIJKLM+,-./0123456789:;<=>?@ABCDEFGHIJKLM  Safe-Inferredj&Parse the input as RNAzOutput datatypek'Parse a RNAz field containing a Double l/Parse a RNAz field containing a String m-Parse a RNAz field containing a Int nParse a RNAz result o+Parse the consenus of RNAz results N"parse RNAzOutput from input stringO/parse from input filePath pqjklmnoNO%+,-./0123456789:;<=>?@ABCDEFGHIJKLMNO pqjklmnoNO  Safe-InferredPYData structure for individual interaction between a target and query nucleic acid seqence PQRSTUVWXYZ[\ PQRSTUVWXYZ[\P QRSTUVWXYZ[\  Safe-Inferredr6Parse the input as list of RNAplexInteraction datatypes.Parse the consenus of RNAplex results ]%parse RNAplexOutput from input string^/parse from input filePath turs]^PQRSTUVWXYZ[\]^turs]^ Safe-Inferred_  !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^²PQRSTUVWXYZ[\]^PQRSTUVWXYZ[\789:;<=>?@ABCDEFGHIJKLM/0123456+,-.NO789:;<=>?@ABCDEFGHIJKLM/0123456+,-.#$%&'()*#$%&'( !"   v !!"#$%%&'()*+,--./01 2 3 4 4 5 6 7 7 8 9 : ; < = > > ? @ A B C D E F G H I J K L M N O P Q R S T U V V W X Y Z [ \ ] ^ _ ` a b cdefghihjg k g l m n o p q g h r s g htViennaRNAParser-1.0.1Bio.ViennaRNAParser Bio.RNAupDataBio.RNAupParserBio.RNAdistanceDataBio.RNAdistanceParserBio.RNAalifoldDataBio.RNAalifoldParserBio.RNAfoldDataBio.RNAfoldParser Bio.RNAzDataBio.RNAzParserBio.RNAplexDataBio.RNAplexParserRNAupInteractionRegionupSecondaryStructureupQueryDuplexBeginupQueryDuplexEndupTargetDuplexBeginupTargetDuplexEndupDuplexEnergy!upDuplexEnergyWithoutAccessiblityupQueryAccessiblityupTargetAccessibilityupQuerySequenceupTargetSequenceupOutputFileNameRNAupInteractionupQueryIdentifierupTargetIdentifierupInteractions parseRNAup readRNAup RNAdistancesecondaryStructureDistanceparseRNAdistancereadRNAdistanceRNAalifoldOutputalignmentConsensusSequencealignmentConsensusDotBracket#alignmentConsensusMinimumFreeEnergy*alignmentConsensusInitialMinimumFreeEnergy/alignmentConsensusEnergyCovarianceContributionsparseRNAalifoldreadRNAalifoldRNAfoldsequenceIdentifier foldSequencefoldSecondaryStructure foldingEnergy parseRNAfold readRNAfold RNAzConsensusconsensusSequenceconsensusDotBracket RNAzResultheaderresultSequence dotBracketminimumFreeEnergyzScorezscoreCalculationApproach RNAzOutputversionsequenceNumber columnNumberreadingDirectionmeanPairwiseIdentityshannonEntropy gcContent#meanSingleSequenceMinimumFreeEnergyconsensusMinimumFreeEnergyenergyContributioncovarianceContributioncombinationsPair meanZScorestructureConservationIndexbackgroundModel decisionModelsvmDecisionValuesvmRNAClassProbability prediction rnazResults rnazConsensus parseRNAzreadRNAzRNAplexInteractiontargetIdentifierqueryIdentifierplexSecondaryStructuretargetDuplexBegintargetDuplexEndqueryDuplexBeginqueryDuplexEnd duplexEnergyduplexEnergyWithoutAccessiblityqueryAccessiblitytargetAccessibility parseRNAplex readRNAplexparseRNAupOutputparseRNAupInteractionparseRNAupInteractionRegion readDoublereadIntgenParserRNAdistancegenParserRNAalifoldgenParserRNAfoldparseRNAzOutputparseRNAzDoubleFieldparseRNAzStringFieldparseRNAzIntFieldparseRNAzResultparseRNAzConsensusparseRNAplexOutputparseRNAplexInteraction