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com.stevesoft.pat.patInf
com.stevesoft.pat.patInf
|
1.0100%
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jalview.io.DataSourceType
jalview.io.DataSourceType
|
1.0100%
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jalview.renderer.ContactMapRenderer.Shading
jalview.renderer.ContactMapRenderer.Shading
|
1.0100%
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jalview.renderer.ScaleRenderer.ScaleMark
jalview.renderer.ScaleRenderer.ScaleMark
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1.0100%
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jalview.ws.WSClient
jalview.ws.WSClient
|
1.0100%
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jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
|
1.0100%
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jalview.structure.StructureImportSettings.TFType
jalview.structure.StructureImportSettings.TFType
|
1.0100%
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jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
|
0.9494%
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jalview.analysis.Conservation
jalview.analysis.Conservation
|
0.8793103787.9%
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com.stevesoft.pat.Rthings
com.stevesoft.pat.Rthings
|
0.8461538684.6%
|
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mc_view.Residue
mc_view.Residue
|
0.8461538684.6%
|
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jalview.datamodel.ContactListImpl
jalview.datamodel.ContactListImpl
|
0.830508583.1%
|
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jalview.datamodel.annotations.AlphaFoldAnnotationRowBuilder
jalview.datamodel.annotations.AlphaFoldAnnotationRowBuilder
|
0.8260869482.6%
|
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|
jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
|
0.7727272577.3%
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jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
|
0.7575%
|
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jalview.fts.core.FTSDataColumnPreferences
jalview.fts.core.FTSDataColumnPreferences
|
0.745762774.6%
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jalview.datamodel.Profiles
jalview.datamodel.Profiles
|
0.7333333573.3%
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jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
|
0.7142857371.4%
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jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
|
0.7142857371.4%
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jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
|
0.712643771.3%
|
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jalview.datamodel.ContactMapHolder
jalview.datamodel.ContactMapHolder
|
0.7115384371.2%
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jalview.ws.jws2.jabaws2.Jws2InstanceFactory
jalview.ws.jws2.jabaws2.Jws2InstanceFactory
|
0.770%
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jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
|
0.696969769.7%
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jalview.util.MapUtils
jalview.util.MapUtils
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0.695652269.6%
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jalview.renderer.ContactMapRenderer
jalview.renderer.ContactMapRenderer
|
0.693877669.4%
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jalview.ws.SequenceFetcher
jalview.ws.SequenceFetcher
|
0.678571467.9%
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jalview.renderer.AnnotationRendererFactory
jalview.renderer.AnnotationRendererFactory
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0.62562.5%
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jalview.util.ParseHtmlBodyAndLinks
jalview.util.ParseHtmlBodyAndLinks
|
0.594202959.4%
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jalview.jbgui.GAlignFrame
jalview.jbgui.GAlignFrame
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0.581220758.1%
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jalview.workers.ConservationThread
jalview.workers.ConservationThread
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0.568965556.9%
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jalview.renderer.ScaleRenderer
jalview.renderer.ScaleRenderer
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0.5656%
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jalview.datamodel.ContactRange
jalview.datamodel.ContactRange
|
0.555555655.6%
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jalview.gui.AssociatePdbFileWithSeq
jalview.gui.AssociatePdbFileWithSeq
|
0.5555%
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mc_view.PDBChain
mc_view.PDBChain
|
0.5357142753.6%
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jalview.ext.jmol.JmolParser
jalview.ext.jmol.JmolParser
|
0.5253333452.5%
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com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
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0.523255852.3%
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jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
|
0.511904851.2%
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jalview.ws.datamodel.alphafold.MappableContactMatrix
jalview.ws.datamodel.alphafold.MappableContactMatrix
|
0.5062761350.6%
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jalview.jbgui.GStructureChooser
jalview.jbgui.GStructureChooser
|
0.5024752650.2%
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jalview.gui.IdCanvas
jalview.gui.IdCanvas
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0.501754450.2%
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jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
|
0.550%
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jalview.viewmodel.ViewportProperties
jalview.viewmodel.ViewportProperties
|
0.550%
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mc_view.Bond
mc_view.Bond
|
0.550%
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jalview.datamodel.GroupSetHolder
jalview.datamodel.GroupSetHolder
|
0.550%
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jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
|
0.550%
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jalview.schemes.FlowerColourScheme
jalview.schemes.FlowerColourScheme
|
0.550%
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jalview.schemes.NucleotideAmbiguityColourScheme
jalview.schemes.NucleotideAmbiguityColourScheme
|
0.550%
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jalview.schemes.PurinePyrimidineColourScheme
jalview.schemes.PurinePyrimidineColourScheme
|
0.550%
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jalview.schemes.NucleotideColourScheme
jalview.schemes.NucleotideColourScheme
|
0.550%
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jalview.schemes.BlossomColourScheme
jalview.schemes.BlossomColourScheme
|
0.550%
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jalview.schemes.SunsetColourScheme
jalview.schemes.SunsetColourScheme
|
0.550%
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jalview.schemes.OceanColourScheme
jalview.schemes.OceanColourScheme
|
0.550%
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jalview.io.AlignFile
jalview.io.AlignFile
|
0.4452054844.5%
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jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
|
0.4429530244.3%
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jalview.io.FileLoader
jalview.io.FileLoader
|
0.438127143.8%
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jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
|
0.4322033843.2%
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jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
|
0.4285714342.9%
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jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
|
0.4285714342.9%
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jalview.io.StructureFile
jalview.io.StructureFile
|
0.42790742.8%
|
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jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.4256410342.6%
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jalview.datamodel.FloatContactMatrix
jalview.datamodel.FloatContactMatrix
|
0.4242%
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
|
0.4166666641.7%
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jalview.datamodel.annotations.AnnotationRowBuilder
jalview.datamodel.annotations.AnnotationRowBuilder
|
0.4102564241%
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jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
|
0.4086538640.9%
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jalview.io.FileFormats
jalview.io.FileFormats
|
0.440%
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jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
|
0.440%
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jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
|
0.440%
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jalview.schemes.HydrophobicColourScheme
jalview.schemes.HydrophobicColourScheme
|
0.440%
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jalview.schemes.HelixColourScheme
jalview.schemes.HelixColourScheme
|
0.440%
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jalview.schemes.TurnColourScheme
jalview.schemes.TurnColourScheme
|
0.440%
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jalview.schemes.StrandColourScheme
jalview.schemes.StrandColourScheme
|
0.440%
|
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jalview.schemes.BuriedColourScheme
jalview.schemes.BuriedColourScheme
|
0.440%
|
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org.json.simple.parser.Yylex
org.json.simple.parser.Yylex
|
0.3980891739.8%
|
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jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
|
0.389090938.9%
|
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jalview.log.JalviewAppender
jalview.log.JalviewAppender
|
0.388888938.9%
|
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jalview.renderer.ContactGeometry
jalview.renderer.ContactGeometry
|
0.37537.5%
|
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jalview.datamodel.Profile
jalview.datamodel.Profile
|
0.37537.5%
|
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
|
0.3737537.4%
|
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jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
|
0.3696369537%
|
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jalview.util.Format
jalview.util.Format
|
0.3685300436.9%
|
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jalview.ws.datamodel.alphafold.PAEContactMatrix
jalview.ws.datamodel.alphafold.PAEContactMatrix
|
0.3628318636.3%
|
|
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jalview.io.FastaFile
jalview.io.FastaFile
|
0.3603603536%
|
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jalview.renderer.ContactGeometry.contactInterval
jalview.renderer.ContactGeometry.contactInterval
|
0.3571428735.7%
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jalview.util.MessageManager
jalview.util.MessageManager
|
0.3571428735.7%
|
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jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
|
0.3554687535.5%
|
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jalview.jbgui.GStructureChooser.AssociateSeqPanel
jalview.jbgui.GStructureChooser.AssociateSeqPanel
|
0.352941235.3%
|
|
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jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.3523550635.2%
|
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jalview.util.Comparison
jalview.util.Comparison
|
0.350393735%
|
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jalview.datamodel.PDBEntry
jalview.datamodel.PDBEntry
|
0.3480176334.8%
|
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jalview.datamodel.Annotation
jalview.datamodel.Annotation
|
0.3428571534.3%
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jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
|
0.3427561834.3%
|
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jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
|
0.3289473732.9%
|
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jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
|
0.31531.5%
|
|
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com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
|
0.3142857331.4%
|
|
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
|
0.307093430.7%
|
|
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jalview.gui.AlignViewport
jalview.gui.AlignViewport
|
0.3036529730.4%
|
|
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jalview.ws.jws2.SequenceAnnotationWSClient
jalview.ws.jws2.SequenceAnnotationWSClient
|
0.2903225729%
|
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jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
|
0.285714328.6%
|
|
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jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
|
0.285714328.6%
|
|
|
jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
|
|
|
jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
|
0.2855711328.6%
|
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org.json.simple.parser.JSONParser
org.json.simple.parser.JSONParser
|
0.2846534628.5%
|
|
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mc_view.Atom
mc_view.Atom
|
0.282051328.2%
|
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jalview.gui.structurechooser.StructureChooserQuerySource
jalview.gui.structurechooser.StructureChooserQuerySource
|
0.2828%
|
|
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jalview.io.IdentifyFile
jalview.io.IdentifyFile
|
0.279365127.9%
|
|
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
|
0.2727272827.3%
|
|
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jalview.io.FileParse
jalview.io.FileParse
|
0.2674094726.7%
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jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
|
0.258503425.9%
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jalview.ws.jws2.JabaWsServerQuery
jalview.ws.jws2.JabaWsServerQuery
|
0.2525%
|
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jalview.ws.uimodel.AlignAnalysisUIText
jalview.ws.uimodel.AlignAnalysisUIText
|
0.2439024424.4%
|
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jalview.ws.rest.params.Alignment
jalview.ws.rest.params.Alignment
|
0.2435897424.4%
|
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jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
|
0.2412746524.1%
|
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.2424%
|
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jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
|
0.2333333323.3%
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jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.2323943723.2%
|
|
|
com.stevesoft.pat.Range
com.stevesoft.pat.Range
|
0.2272727322.7%
|
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com.stevesoft.pat.Bracket
com.stevesoft.pat.Bracket
|
0.22522.5%
|
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jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
|
0.224806222.5%
|
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jalview.util.MapList
jalview.util.MapList
|
0.2242990622.4%
|
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jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
|
0.2228915722.3%
|
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jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
|
0.220543822.1%
|
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
|
0.2187521.9%
|
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jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.2174913721.7%
|
|
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jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
|
0.2151898721.5%
|
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jalview.util.QuickSort
jalview.util.QuickSort
|
0.2135922321.4%
|
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jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
|
0.2127659621.3%
|
|
|
jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
|
0.2115384621.2%
|
|
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com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
|
0.2072727220.7%
|
|
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jalview.ws.rest.InputType
jalview.ws.rest.InputType
|
0.2056074720.6%
|
|
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jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
|
0.2014388420.1%
|
|
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jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.1970443319.7%
|
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jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
|
0.191082819.1%
|
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|
jalview.fts.core.FTSDataColumnPreferences.FTSDataColumnPrefsTableModel
jalview.fts.core.FTSDataColumnPreferences.FTSDataColumnPrefsTableModel
|
0.1857142918.6%
|
|
|
com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
|
0.1805555518.1%
|
|
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com.stevesoft.pat.patInt
com.stevesoft.pat.patInt
|
0.17517.5%
|
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
|
0.1739130517.4%
|
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|
jalview.util.ColorUtils
jalview.util.ColorUtils
|
0.1720430117.2%
|
|
|
jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.1675977716.8%
|
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jalview.jbgui.GStructureChooser.CustomComboSeparatorsRenderer
jalview.jbgui.GStructureChooser.CustomComboSeparatorsRenderer
|
0.1666666716.7%
|
|
|
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.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
|
0.1475409914.8%
|
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jalview.fts.core.FTSRestClient
jalview.fts.core.FTSRestClient
|
0.1467181414.7%
|
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jalview.log.JLogger
jalview.log.JLogger
|
0.1428571514.3%
|
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jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
|
0.1428571514.3%
|
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
|
0.1428571514.3%
|
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jalview.ws.dbsources.EBIAlfaFold
jalview.ws.dbsources.EBIAlfaFold
|
0.1417910514.2%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.1334033613.3%
|
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|
jalview.datamodel.GroupSet
jalview.datamodel.GroupSet
|
0.1293103412.9%
|
|
|
jalview.gui.AlignFrame
jalview.gui.AlignFrame
|
0.1257613712.6%
|
|
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jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
|
0.12408759412.4%
|
|
|
jalview.io.FormatAdapter
jalview.io.FormatAdapter
|
0.1212%
|
|
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jalview.util.StringUtils
jalview.util.StringUtils
|
0.1212%
|
|
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jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
|
0.1176470611.8%
|
|
|
jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
|
0.11538461611.5%
|
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jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
|
0.11458333611.5%
|
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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.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
|
0.1111111111.1%
|
|
|
jalview.io.FileFormat
jalview.io.FileFormat
|
0.1085271310.9%
|
|
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jalview.util.Platform
jalview.util.Platform
|
0.10849056410.8%
|
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jalview.log.JLoggerLog4j
jalview.log.JLoggerLog4j
|
0.10679611610.7%
|
|
|
jalview.datamodel.Mapping
jalview.datamodel.Mapping
|
0.10389610410.4%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.1028806610.3%
|
|
|
jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
|
0.10256410410.3%
|
|
|
com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
|
0.098639469.9%
|
|
|
jalview.datamodel.ContactMatrixI
jalview.datamodel.ContactMatrixI
|
0.0970873769.7%
|
|
|
org.json.simple.parser.Yytoken
org.json.simple.parser.Yytoken
|
0.096774199.7%
|
|
|
jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
|
0.09523819.5%
|
|
|
jalview.fts.service.threedbeacons.TDBeaconsFTSRestClient
jalview.fts.service.threedbeacons.TDBeaconsFTSRestClient
|
0.093759.4%
|
|
|
com.stevesoft.pat.Or
com.stevesoft.pat.Or
|
0.089743599%
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jalview.ws.dbsources.Xfam
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jalview.util.CaseInsensitiveString
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jalview.gui.Console
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jalview.schemes.RNAHelicesColour
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jalview.gui.ProgressBar
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jalview.gui.Desktop
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jalview.bin.Console
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com.stevesoft.pat.OrMark
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com.stevesoft.pat.FastMulti
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jalview.gui.IdPanel
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com.stevesoft.pat.RegOpt
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jalview.analysis.CrossRef
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jalview.gui.StructureChooser
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jalview.datamodel.DBRefEntry
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ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
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jalview.gui.ViewSelectionMenu
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jalview.ws.seqfetcher.ASequenceFetcher
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jalview.structure.StructureImportSettings
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jalview.ws.seqfetcher.DbSourceProxyImpl
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jalview.ws.jws1.Discoverer
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jalview.analysis.GeneticCodes
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jalview.bin.Cache
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jalview.structure.StructureMapping
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jalview.util.DBRefUtils
jalview.util.DBRefUtils
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jalview.datamodel.ColumnSelection
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jalview.gui.WsParamSetManager
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jalview.ws.dbsources.Pdb
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jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
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jalview.gui.structurechooser.ThreeDBStructureChooserQuerySource
jalview.gui.structurechooser.ThreeDBStructureChooserQuerySource
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org.json.simple.JSONObject
org.json.simple.JSONObject
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jalview.datamodel.HiddenColumns
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jalview.ws.jws1.JPredClient
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jalview.datamodel.HiddenSequences
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jalview.util.MappingUtils
jalview.util.MappingUtils
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jalview.schemes.ClustalxColourScheme
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jalview.datamodel.HiddenColumnsCursor
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jalview.ws.dbsources.Uniprot
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jalview.gui.StructureViewer
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jalview.controller.AlignViewController
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jalview.datamodel.SearchResults
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jalview.gui.SeqPanel
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jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
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jalview.gui.SequenceFetcher
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jalview.ext.ensembl.EnsemblGene
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jalview.bin.Jalview
jalview.bin.Jalview
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org.json.simple.JSONArray
org.json.simple.JSONArray
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jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
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com.stevesoft.pat.RegRes
com.stevesoft.pat.RegRes
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jalview.gui.QuitHandler
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jalview.ext.jmol.JalviewJmolBinding
jalview.ext.jmol.JalviewJmolBinding
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com.stevesoft.pat.CaseMgr
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jalview.schemes.ResidueProperties
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