$      !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~ Safe-Inferred >Scanned sites contain all sites evaluated for possible motifs (@The motifs are predicted by appying the model to the trainingsetx7Training set defines the data used for the motif search Document Root of Meme xml output  !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~  !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~xyz{|}~stuvwopqrlmnfghijkcdeCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`ab?@AB<=>89:;()*+,-./01234567%&'"#$ !     !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~NoneParse XML results in XML format-gets all subtrees with the specified tag name1gets all subtrees with the specified id attribute.removes whitespace characters %gets the whole memexml document tree get the Training set subtreeget the model subtree get a result motif  !"#$%&'()*+,-./0123456789:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXYZ[\]^_`abcdefghijklmnopqrstuvwxyz{|}~        !""#$%&'()*+,-./01123445667899:;<=>?@ABCDEFGHIJKLMNOPQRSTUVWXXYZZ[\]^__`aabcddefghhijklmnoopqrstuvwxyz{|}~ memexml-0.0.3 Bio.MemeData Bio.MemeXML ScannedSitescannedsiteMotifIdstrandpositionscannedSitePvalue ScannedSitesscannedsitesSequenceIdscannedSitesPvaluenumSitesscannedSiteArrayScannedSiteSummarypThresh scannedSitesLetterReferenceletterReferenceSitesiteLetterReferencesContributingSitecontributingSiteIdcontributingSitePositioncontributingSiteStrandcontributingSitePvaluecontributingSiteLeftFlankcontributingSiteRightFlankcontributingSiteAlphabetMatrixalphabetMatrixArrays PropabilitiespropabilitiesAlphabetMatrixScoresscoreAlphabetMatrixMotifmotifId motifName motifWidth motifSitesmotifIcmotifRemotifLlr motifEvaluemotifBayesTresholdmotifElapsedTimemotifRegularexpression motifScoresmotifProbabilitesmotifContributingsitesAlphabetArrayValueletterId frequency AlphabetArrayalphabetArrayValuesBackgroundFrequenciessource"backgroundFrequenciesAlphabetArrayModel commandLinehost modelTypenmotifsevalueThresholdobjectFunctionminWidthmaxWidthminicwgwsendGapsminSitesmaxSiteswnSitesprobspMapspFuzzpriorbetamaxiterdistance numSequences numPositionsseedseqfracstrands priorsFilereasonForStoppingbackgroundFrequenciesLetterFrequenciesletterFrequenciesAlphabetArraySequence sequenceId sequenceNamesequenceLengthsequenceWeight MemeAmbigsmemeAmbigLetters MemeLetter memeLetterIdmemeLetterSymbol MemeAlphabetmemeAlphabetIdmemeAlphabetLengthmemeAlphabetLetters TrainingSettrainingsetDatafiletrainingsetLengthtrainingsetAlphabettrainingsetAmbigstrainingsetSequencestrainingsetLetterFrequencies MemeResult memeversion memerelease trainingsetmodelmotifsscannedSiteSummaryparseXMLatTagatIdrstrip getMemeResultgetTrainingSetgetMemeAlphabet getLetter getAmbigsgetLetterFrequenciesgetModelgetBackgroundFrequencies getSequencegetMotifgetContributingSitegetScannedSiteSummarygetScannedSitesgetScannedSitegetAlphabetArraygetAlphabetArrayValues getScoresgetPropabilitiesgetAlphabetMatrixgetSitegetSiteLetterReference