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1.0100%
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jalview.xml.binding.jalview.SequenceType
jalview.xml.binding.jalview.SequenceType
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1.0100%
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jalview.xml.binding.jalview.JalviewModel.FeatureSettings.Group
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jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids
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1.0100%
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1.0100%
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jalview.xml.binding.jalview.Pdbentry
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jalview.util.QuickSort.IntComparator
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com.stevesoft.pat.OrMark
com.stevesoft.pat.OrMark
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com.stevesoft.pat.Rthings
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mc_view.Residue
mc_view.Residue
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com.stevesoft.pat.SubMark
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jalview.workers.AlignCalcManager
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com.stevesoft.pat.Bracket
com.stevesoft.pat.Bracket
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0.770%
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com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
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jalview.ws.SequenceFetcher
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jalview.util.CaseInsensitiveString
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jalview.gui.IdCanvas
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com.stevesoft.pat.Range
com.stevesoft.pat.Range
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jalview.datamodel.StructureViewerModel.StructureData
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com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
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mc_view.PDBChain
mc_view.PDBChain
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jalview.io.NewickFile
jalview.io.NewickFile
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com.stevesoft.pat.Boundary
com.stevesoft.pat.Boundary
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jalview.datamodel.PDBEntry
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jalview.ext.jmol.JmolParser
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com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
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0.550%
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com.stevesoft.pat.FastChar
com.stevesoft.pat.FastChar
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0.550%
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com.stevesoft.pat.FastMulti
com.stevesoft.pat.FastMulti
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0.550%
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jalview.viewmodel.ViewportProperties
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0.550%
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jalview.xml.binding.jalview.VAMSAS
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0.550%
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mc_view.Bond
mc_view.Bond
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0.550%
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0.550%
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0.550%
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jalview.schemes.NucleotideAmbiguityColourScheme
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0.550%
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jalview.schemes.PurinePyrimidineColourScheme
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0.550%
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jalview.schemes.NucleotideColourScheme
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0.550%
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0.550%
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jalview.schemes.SunsetColourScheme
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0.550%
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0.550%
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jalview.analysis.SequenceIdMatcher
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0.550%
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jalview.project.Jalview2XML
jalview.project.Jalview2XML
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jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
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0.4855769348.6%
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jalview.util.MessageManager
jalview.util.MessageManager
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0.4761904847.6%
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jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
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0.467391346.7%
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jalview.gui.ColourMenuHelper
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jalview.datamodel.features.SequenceFeatures
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jalview.analysis.AAFrequency
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jalview.gui.AlignViewport
jalview.gui.AlignViewport
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0.452054845.2%
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jalview.datamodel.ResidueCount
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0.4509090845.1%
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com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
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jalview.gui.SeqCanvas
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jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
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0.4429530244.3%
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jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
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0.4307692343.1%
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jalview.viewmodel.AlignmentViewport
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jalview.io.StructureFile
jalview.io.StructureFile
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0.4186046441.9%
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
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jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
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com.stevesoft.pat.Or
com.stevesoft.pat.Or
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0.4102564241%
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jalview.util.Comparison
jalview.util.Comparison
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jalview.viewmodel.ViewportRanges
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0.4092409340.9%
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jalview.analysis.TreeModel
jalview.analysis.TreeModel
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0.406374540.6%
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jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
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0.440%
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jalview.schemes.HydrophobicColourScheme
jalview.schemes.HydrophobicColourScheme
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0.440%
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jalview.schemes.HelixColourScheme
jalview.schemes.HelixColourScheme
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0.440%
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jalview.schemes.TurnColourScheme
jalview.schemes.TurnColourScheme
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0.440%
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jalview.schemes.StrandColourScheme
jalview.schemes.StrandColourScheme
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0.440%
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jalview.schemes.BuriedColourScheme
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0.440%
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jalview.log.JalviewAppender
jalview.log.JalviewAppender
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0.388888938.9%
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jalview.datamodel.Range
jalview.datamodel.Range
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0.388888938.9%
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jalview.ext.jmol.JalviewJmolBinding
jalview.ext.jmol.JalviewJmolBinding
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0.3886639838.9%
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jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
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0.385714338.6%
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jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
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0.3812949738.1%
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jalview.util.Format
jalview.util.Format
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0.3685300436.9%
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jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
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0.3655589236.6%
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jalview.util.QuickSort
jalview.util.QuickSort
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0.352750835.3%
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
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0.3487534.9%
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
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0.3453333434.5%
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jalview.datamodel.HiddenSequences
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0.3378995433.8%
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jalview.gui.StructureViewerBase
jalview.gui.StructureViewerBase
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0.3372606633.7%
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
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0.336505233.7%
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jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
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0.3333333433.3%
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com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
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0.331818233.2%
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jalview.io.FileLoader
jalview.io.FileLoader
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0.3244147332.4%
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jalview.xml.binding.jalview.JalviewModel.FeatureSettings.Setting
jalview.xml.binding.jalview.JalviewModel.FeatureSettings.Setting
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0.3225806432.3%
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jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
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0.31531.5%
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jalview.renderer.seqfeatures.FeatureRenderer
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0.3132075431.3%
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jalview.datamodel.PDBEntry.Type
jalview.datamodel.PDBEntry.Type
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0.312531.2%
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jalview.workers.AlignCalcWorker
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0.3095238231%
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jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
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0.302631630.3%
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jalview.ws.jws2.SequenceAnnotationWSClient
jalview.ws.jws2.SequenceAnnotationWSClient
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0.2903225729%
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jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
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0.285714328.6%
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jalview.datamodel.Annotation
jalview.datamodel.Annotation
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jalview.schemes.JalviewColourScheme
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0.285714328.6%
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jalview.structure.StructureImportSettings
jalview.structure.StructureImportSettings
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jalview.datamodel.annotations.AnnotationRowBuilder
jalview.datamodel.annotations.AnnotationRowBuilder
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0.282051328.2%
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mc_view.Atom
mc_view.Atom
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0.282051328.2%
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jalview.viewmodel.seqfeatures.FeaturesDisplayed
jalview.viewmodel.seqfeatures.FeaturesDisplayed
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0.2812528.1%
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jalview.datamodel.DBRefEntry
jalview.datamodel.DBRefEntry
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0.2808219228.1%
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jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
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0.280125228%
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jalview.gui.TreePanel
jalview.gui.TreePanel
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0.274760427.5%
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
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0.2727272827.3%
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jalview.gui.AppJmolBinding
jalview.gui.AppJmolBinding
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0.2710280427.1%
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
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0.2695312527%
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
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0.2608695626.1%
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jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
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0.258503425.9%
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jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
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com.stevesoft.pat.NullPattern
com.stevesoft.pat.NullPattern
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0.2525%
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com.stevesoft.pat.StringRule
com.stevesoft.pat.StringRule
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0.2525%
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jalview.renderer.AnnotationRendererFactory
jalview.renderer.AnnotationRendererFactory
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0.2525%
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jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
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0.2456140424.6%
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jalview.ws.uimodel.AlignAnalysisUIText
jalview.ws.uimodel.AlignAnalysisUIText
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0.2439024424.4%
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jalview.ws.rest.params.Alignment
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jalview.io.FileFormats
jalview.io.FileFormats
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0.2424%
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com.stevesoft.pat.RegRes
com.stevesoft.pat.RegRes
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0.2391304423.9%
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jalview.structures.models.AAStructureBindingModel
jalview.structures.models.AAStructureBindingModel
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0.2339930123.4%
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jalview.io.FileParse
jalview.io.FileParse
|
0.233983323.4%
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jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
|
0.2336633723.4%
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jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
|
0.2333333323.3%
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jalview.datamodel.SequenceNode
jalview.datamodel.SequenceNode
|
0.2307692323.1%
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jalview.gui.AppJmol
jalview.gui.AppJmol
|
0.2293233122.9%
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jalview.structure.StructureCommand
jalview.structure.StructureCommand
|
0.2266666722.7%
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jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
|
0.224806222.5%
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jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
|
0.2228915722.3%
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jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.2225325922.3%
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jalview.datamodel.SequenceGroup
jalview.datamodel.SequenceGroup
|
0.2223903222.2%
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jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.2220943622.2%
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jalview.structure.StructureMapping
jalview.structure.StructureMapping
|
0.2176165721.8%
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jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
|
0.2127659621.3%
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jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.2115384621.2%
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jalview.ws.rest.InputType
jalview.ws.rest.InputType
|
0.2056074720.6%
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com.stevesoft.pat.patInt
com.stevesoft.pat.patInt
|
0.220%
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jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1970443319.7%
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jalview.log.JLogger
jalview.log.JLogger
|
0.1868131918.7%
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jalview.io.AlignFile
jalview.io.AlignFile
|
0.184931518.5%
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jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1803278618%
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jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.176470617.6%
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jalview.util.StringUtils
jalview.util.StringUtils
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0.1723076917.2%
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jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.1722689117.2%
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jalview.bin.Console
jalview.bin.Console
|
0.1674876816.7%
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jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.1650793716.5%
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jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
|
0.1616%
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jalview.gui.Desktop.MyDesktopManager
jalview.gui.Desktop.MyDesktopManager
|
0.1555555615.6%
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jalview.viewmodel.seqfeatures.FeatureRendererSettings
jalview.viewmodel.seqfeatures.FeatureRendererSettings
|
0.1555555615.6%
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jalview.gui.AlignFrame
jalview.gui.AlignFrame
|
0.1522751715.2%
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jalview.gui.Desktop
jalview.gui.Desktop
|
0.1492027314.9%
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jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
|
0.148584914.9%
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jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
|
0.1428571514.3%
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com.stevesoft.pat.Branch
com.stevesoft.pat.Branch
|
0.140939614.1%
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jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
|
0.1333333413.3%
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jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
|
0.12408759412.4%
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jalview.analysis.CrossRef
jalview.analysis.CrossRef
|
0.1229508212.3%
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jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
|
0.11538461611.5%
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jalview.util.MapList
jalview.util.MapList
|
0.11526479611.5%
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jalview.util.ShortcutKeyMaskExWrapper
jalview.util.ShortcutKeyMaskExWrapper
|
0.1111111111.1%
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jalview.ws.sifts.SiftsSettings
jalview.ws.sifts.SiftsSettings
|
0.1111111111.1%
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jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
|
0.1095890411%
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jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.1075268810.8%
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jalview.schemes.FeatureColour
jalview.schemes.FeatureColour
|
0.10736842510.7%
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jalview.log.JLoggerLog4j
jalview.log.JLoggerLog4j
|
0.10679611610.7%
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jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.1057401810.6%
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jalview.datamodel.Mapping
jalview.datamodel.Mapping
|
0.10389610410.4%
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jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.1028806610.3%
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jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
|
0.10256410410.3%
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com.stevesoft.pat.Replacer
com.stevesoft.pat.Replacer
|
0.091891899.2%
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com.stevesoft.pat.ReplaceRule
com.stevesoft.pat.ReplaceRule
|
0.08771938.8%
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jalview.gui.TreeCanvas
jalview.gui.TreeCanvas
|
0.087407418.7%
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jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
|
0.086956528.7%
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jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
|
0.085106388.5%
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jalview.ext.ensembl.EnsemblSequenceFetcher
jalview.ext.ensembl.EnsemblSequenceFetcher
|
0.0833333368.3%
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jalview.gui.Console
jalview.gui.Console
|
0.082568818.3%
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jalview.gui.ProgressBar
jalview.gui.ProgressBar
|
0.081300818.1%
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jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
|
0.081081088.1%
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jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.074766357.5%
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jalview.util.Platform
jalview.util.Platform
|
0.0707547147.1%
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jalview.gui.IdPanel
jalview.gui.IdPanel
|
0.067264576.7%
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com.stevesoft.pat.RegOpt
com.stevesoft.pat.RegOpt
|
0.06474826.5%
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jalview.io.FileFormat
jalview.io.FileFormat
|
0.0620155046.2%
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ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
|
0.061224496.1%
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jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
|
0.059405945.9%
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jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
|
0.0577777775.8%
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jalview.datamodel.ContactMapHolder
jalview.datamodel.ContactMapHolder
|
0.0576923085.8%
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jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
|
0.0512820525.1%
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jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
|
0.0496894425%
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jalview.bin.Cache
jalview.bin.Cache
|
0.0482093654.8%
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jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
|
0.0468754.7%
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.043478264.3%
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jalview.ext.jmol.JmolCommands
jalview.ext.jmol.JmolCommands
|
0.043307094.3%
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jalview.xml.binding.jalview.ObjectFactory
jalview.xml.binding.jalview.ObjectFactory
|
0.0427350444.3%
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jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
|
0.0416666684.2%
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jalview.gui.StructureViewer
jalview.gui.StructureViewer
|
0.0346534663.5%
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jalview.gui.SliderPanel
jalview.gui.SliderPanel
|
0.031253.1%
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jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
|
0.0310559013.1%
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jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0254237282.5%
|
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jalview.structure.StructureCommandsBase
jalview.structure.StructureCommandsBase
|
0.0243902432.4%
|
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jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0238907862.4%
|
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jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.017182131.7%
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jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
|
0.0155642021.6%
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mc_view.PDBfile
mc_view.PDBfile
|
0.0150375941.5%
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jalview.datamodel.SearchResults
jalview.datamodel.SearchResults
|
0.0128205131.3%
|
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jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0125412541.3%
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jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0122699381.2%
|
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jalview.bin.Jalview
jalview.bin.Jalview
|
0.0117328521.2%
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jalview.util.HttpUtils
jalview.util.HttpUtils
|
0.01169590651.2%
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jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
|
0.0089285720.9%
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jalview.bin.argparser.BootstrapArgs
jalview.bin.argparser.BootstrapArgs
|
0.0082644620.8%
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jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
|
0.0081632650.8%
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jalview.gui.QuitHandler
jalview.gui.QuitHandler
|
0.00722021660.7%
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jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
|
0.0043859650.4%
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com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
|
0.00278551530.3%
|
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jalview.schemes.ResidueProperties
jalview.schemes.ResidueProperties
|
0.00105042020.1%
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