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com.stevesoft.pat.patInf
com.stevesoft.pat.patInf
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1.0100%
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jalview.io.DataSourceType
jalview.io.DataSourceType
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1.0100%
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jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids
jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids
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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
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1.0100%
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jalview.project.Jalview2XML.JvAnnotRow
jalview.project.Jalview2XML.JvAnnotRow
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1.0100%
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jalview.datamodel.HiddenCursorPosition
jalview.datamodel.HiddenCursorPosition
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1.0100%
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jalview.datamodel.ResidueCount.SymbolCounts
jalview.datamodel.ResidueCount.SymbolCounts
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1.0100%
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jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
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1.0100%
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jalview.jbgui.GAlignmentPanel
jalview.jbgui.GAlignmentPanel
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0.9494%
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jalview.analysis.Conservation
jalview.analysis.Conservation
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0.8916256489.2%
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jalview.viewmodel.styles.ViewStyle
jalview.viewmodel.styles.ViewStyle
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0.89062589.1%
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jalview.datamodel.HiddenColumnsCursor
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0.89062589.1%
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jalview.util.QuickSort.IntComparator
jalview.util.QuickSort.IntComparator
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0.8571428785.7%
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com.stevesoft.pat.OrMark
com.stevesoft.pat.OrMark
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0.8585%
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com.stevesoft.pat.Rthings
com.stevesoft.pat.Rthings
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0.8461538684.6%
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mc_view.Residue
mc_view.Residue
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0.8461538684.6%
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jalview.datamodel.VisibleContigsIterator
jalview.datamodel.VisibleContigsIterator
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0.8085106680.9%
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com.stevesoft.pat.SubMark
com.stevesoft.pat.SubMark
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0.880%
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jalview.util.LinkedIdentityHashSet
jalview.util.LinkedIdentityHashSet
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0.7727272577.3%
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jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
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0.767676876.8%
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jalview.datamodel.StructureViewerModel
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0.7676%
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jalview.structures.models.SequenceStructureBindingModel
jalview.structures.models.SequenceStructureBindingModel
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0.7575%
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jalview.schemes.ResidueColourScheme
jalview.schemes.ResidueColourScheme
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0.738095273.8%
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jalview.xml.binding.jalview.SequenceSet
jalview.xml.binding.jalview.SequenceSet
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0.736842173.7%
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jalview.datamodel.Profiles
jalview.datamodel.Profiles
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0.7333333573.3%
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jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
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0.7142857371.4%
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jalview.util.LinkedIdentityHashSet.IdentityWrapper
jalview.util.LinkedIdentityHashSet.IdentityWrapper
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0.7142857371.4%
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jalview.jbgui.GStructureViewer
jalview.jbgui.GStructureViewer
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0.703296770.3%
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jalview.workers.AlignCalcManager
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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jalview.datamodel.StartRegionIterator
jalview.datamodel.StartRegionIterator
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0.694444469.4%
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jalview.gui.TreePanel.TreeLoader
jalview.gui.TreePanel.TreeLoader
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0.687568.8%
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com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
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jalview.ws.SequenceFetcher
jalview.ws.SequenceFetcher
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0.678571467.9%
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jalview.xml.binding.jalview.JalviewModel.FeatureSettings
jalview.xml.binding.jalview.JalviewModel.FeatureSettings
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0.666666766.7%
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jalview.xml.binding.jalview.JalviewModel.JSeq
jalview.xml.binding.jalview.JalviewModel.JSeq
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0.666666766.7%
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jalview.gui.IdCanvas
jalview.gui.IdCanvas
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0.656140365.6%
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jalview.workers.ConservationThread
jalview.workers.ConservationThread
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0.655172465.5%
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jalview.io.PDBFeatureSettings
jalview.io.PDBFeatureSettings
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0.6428571364.3%
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com.stevesoft.pat.Range
com.stevesoft.pat.Range
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0.636363663.6%
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com.stevesoft.pat.wrap.StringWrap
com.stevesoft.pat.wrap.StringWrap
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0.62562.5%
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jalview.datamodel.StructureViewerModel.StructureData
jalview.datamodel.StructureViewerModel.StructureData
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0.62562.5%
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com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
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0.6162790761.6%
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jalview.xml.binding.jalview.JalviewModel
jalview.xml.binding.jalview.JalviewModel
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0.6153846461.5%
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jalview.xml.binding.jalview.Pdbentry
jalview.xml.binding.jalview.Pdbentry
|
0.611111161.1%
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jalview.analysis.SequenceIdMatcher.SeqIdName
jalview.analysis.SequenceIdMatcher.SeqIdName
|
0.605263260.5%
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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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0.588732458.9%
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jalview.xml.binding.jalview.Feature
jalview.xml.binding.jalview.Feature
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0.588235358.8%
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jalview.jbgui.GTreePanel
jalview.jbgui.GTreePanel
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0.584158458.4%
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jalview.datamodel.Profile
jalview.datamodel.Profile
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0.571428657.1%
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jalview.schemes.FeatureSettingsAdapter
jalview.schemes.FeatureSettingsAdapter
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0.571428657.1%
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jalview.util.CaseInsensitiveString
jalview.util.CaseInsensitiveString
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0.565217456.5%
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jalview.renderer.ScaleRenderer
jalview.renderer.ScaleRenderer
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0.5656%
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jalview.datamodel.BinaryNode
jalview.datamodel.BinaryNode
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0.541666754.2%
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mc_view.PDBChain
mc_view.PDBChain
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0.5329670353.3%
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jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
|
0.5211267552.1%
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com.stevesoft.pat.Boundary
com.stevesoft.pat.Boundary
|
0.518518551.9%
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jalview.ext.jmol.JmolParser
jalview.ext.jmol.JmolParser
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0.509333350.9%
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com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
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0.506944450.7%
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jalview.gui.JalviewChangeSupport
jalview.gui.JalviewChangeSupport
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0.550%
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com.stevesoft.pat.FastChar
com.stevesoft.pat.FastChar
|
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
jalview.viewmodel.ViewportProperties
|
0.550%
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jalview.xml.binding.jalview.Feature.OtherData
jalview.xml.binding.jalview.Feature.OtherData
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0.550%
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jalview.xml.binding.jalview.AnnotationElement
jalview.xml.binding.jalview.AnnotationElement
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0.550%
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jalview.xml.binding.jalview.SequenceType
jalview.xml.binding.jalview.SequenceType
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0.550%
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jalview.xml.binding.jalview.JalviewModel.FeatureSettings.Group
jalview.xml.binding.jalview.JalviewModel.FeatureSettings.Group
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0.550%
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jalview.xml.binding.jalview.JalviewModel.Viewport.HiddenColumns
jalview.xml.binding.jalview.JalviewModel.Viewport.HiddenColumns
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0.550%
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jalview.xml.binding.jalview.Annotation
jalview.xml.binding.jalview.Annotation
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0.550%
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jalview.xml.binding.jalview.Sequence.DBRef
jalview.xml.binding.jalview.Sequence.DBRef
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0.550%
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mc_view.Bond
mc_view.Bond
|
0.550%
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jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
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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
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0.550%
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jalview.schemes.OceanColourScheme
jalview.schemes.OceanColourScheme
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0.550%
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jalview.xml.binding.jalview.JalviewModel.Viewport
jalview.xml.binding.jalview.JalviewModel.Viewport
|
0.4927536249.3%
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jalview.analysis.SequenceIdMatcher
jalview.analysis.SequenceIdMatcher
|
0.4912280749.1%
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jalview.xml.binding.jalview.JalviewModel.JGroup
jalview.xml.binding.jalview.JalviewModel.JGroup
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0.4901960849%
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jalview.datamodel.PDBEntry
jalview.datamodel.PDBEntry
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0.488986848.9%
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jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
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0.4855769348.6%
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jalview.xml.binding.jalview.JalviewModel.Tree
jalview.xml.binding.jalview.JalviewModel.Tree
|
0.4761904847.6%
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jalview.util.MessageManager
jalview.util.MessageManager
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0.4761904847.6%
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jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
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0.466101746.6%
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jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
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0.4649681446.5%
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jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
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0.464673946.5%
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jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids.StructureState
jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids.StructureState
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0.464285746.4%
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jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
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0.455696245.6%
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jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
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0.4523809645.2%
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jalview.datamodel.ResidueCount
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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0.448979644.9%
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jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
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0.4438877744.4%
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jalview.gui.AlignViewport
jalview.gui.AlignViewport
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0.4315068443.2%
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jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.4307692343.1%
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jalview.xml.binding.jalview.Sequence
jalview.xml.binding.jalview.Sequence
|
0.4285714342.9%
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jalview.io.StructureFile
jalview.io.StructureFile
|
0.4186046441.9%
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
|
0.4166666641.7%
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com.stevesoft.pat.Or
com.stevesoft.pat.Or
|
0.4102564241%
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jalview.util.Comparison
jalview.util.Comparison
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0.4094488340.9%
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jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
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0.4092409340.9%
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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
jalview.schemes.BuriedColourScheme
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0.440%
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jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
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0.3975720739.8%
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jalview.datamodel.Range
jalview.datamodel.Range
|
0.388888938.9%
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jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
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0.3776978637.8%
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jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
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0.3733804537.3%
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jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
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0.3714285837.1%
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jalview.analysis.TreeModel
jalview.analysis.TreeModel
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0.3705179437.1%
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jalview.util.Format
jalview.util.Format
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0.3685300436.9%
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jalview.io.NewickFile
jalview.io.NewickFile
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0.3672055336.7%
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jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
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0.3564954735.6%
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jalview.ext.jmol.JalviewJmolBinding
jalview.ext.jmol.JalviewJmolBinding
|
0.3491735534.9%
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jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
|
0.348993334.9%
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
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0.3412534.1%
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jalview.xml.binding.jalview.VAMSAS
jalview.xml.binding.jalview.VAMSAS
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0.3333333433.3%
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
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0.3295847833%
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com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
|
0.3263636232.6%
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jalview.io.FileLoader
jalview.io.FileLoader
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0.3177257531.8%
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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
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.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
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0.302631630.3%
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jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.2876712428.8%
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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
|
0.285714328.6%
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jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
|
0.285714328.6%
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jalview.structure.StructureImportSettings
jalview.structure.StructureImportSettings
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0.285714328.6%
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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
|
0.2812528.1%
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
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0.273437527.3%
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
|
0.2727272827.3%
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jalview.util.QuickSort
jalview.util.QuickSort
|
0.2653721626.5%
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
|
0.2626666726.3%
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
|
0.2608695626.1%
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jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
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0.25665125.7%
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jalview.project.Jalview2XML
jalview.project.Jalview2XML
|
0.2562387625.6%
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com.stevesoft.pat.NullPattern
com.stevesoft.pat.NullPattern
|
0.2525%
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com.stevesoft.pat.StringRule
com.stevesoft.pat.StringRule
|
0.2525%
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jalview.renderer.AnnotationRendererFactory
jalview.renderer.AnnotationRendererFactory
|
0.2525%
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jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
|
0.2525%
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jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
|
0.2456140424.6%
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jalview.ws.rest.params.Alignment
jalview.ws.rest.params.Alignment
|
0.2435897424.4%
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jalview.io.FileFormats
jalview.io.FileFormats
|
0.2424%
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jalview.datamodel.DBRefEntry
jalview.datamodel.DBRefEntry
|
0.2397260224%
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com.stevesoft.pat.RegRes
com.stevesoft.pat.RegRes
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0.2391304423.9%
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jalview.gui.TreePanel
jalview.gui.TreePanel
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0.2364217223.6%
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jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
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0.2333333323.3%
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jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
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0.2312925223.1%
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jalview.io.FileParse
jalview.io.FileParse
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0.2311977723.1%
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jalview.datamodel.SequenceNode
jalview.datamodel.SequenceNode
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0.2307692323.1%
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jalview.gui.StructureViewerBase
jalview.gui.StructureViewerBase
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0.2270029622.7%
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jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
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0.224806222.5%
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jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
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0.2220943622.2%
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jalview.datamodel.SequenceGroup
jalview.datamodel.SequenceGroup
|
0.2178517421.8%
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jalview.structure.StructureMapping
jalview.structure.StructureMapping
|
0.2176165721.8%
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jalview.gui.AppJmol
jalview.gui.AppJmol
|
0.2142857221.4%
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jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
|
0.2127659621.3%
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jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.2118226621.2%
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jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
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0.2115384621.2%
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jalview.ws.jws2.jabaws2.Jws2Instance
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jalview.datamodel.Alignment
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com.stevesoft.pat.patInt
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jalview.schemes.Blosum62ColourScheme
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jalview.util.StringUtils
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jalview.ws.jws1.WS1Client
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jalview.gui.Desktop.MyDesktopManager
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jalview.gui.AlignFrame
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jalview.gui.Desktop.MyDesktopPane
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jalview.ws.jws2.Jws2Discoverer
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com.stevesoft.pat.Branch
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jalview.datamodel.HiddenColumns
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jalview.schemes.PIDColourScheme
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jalview.ws.rest.params.SeqGroupIndexVector
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jalview.analysis.CrossRef
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jalview.gui.Desktop
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jalview.structure.StructureCommand
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jalview.ws.rest.RestClient
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jalview.util.MapList
jalview.util.MapList
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jalview.util.ShortcutKeyMaskExWrapper
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jalview.ws.sifts.SiftsSettings
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jalview.schemes.RNAHelicesColour
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jalview.util.ColorUtils
jalview.util.ColorUtils
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jalview.schemes.FeatureColour
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jalview.util.DBRefUtils
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jalview.datamodel.Mapping
jalview.datamodel.Mapping
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jalview.analysis.scoremodels.ScoreMatrix
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jalview.ws.rest.params.AnnotationFile
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com.stevesoft.pat.ReplaceRule
com.stevesoft.pat.ReplaceRule
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jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
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jalview.ws.dbsources.Pdb
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jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
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0.0843373468.4%
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jalview.ext.ensembl.EnsemblSequenceFetcher
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0.0833333368.3%
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jalview.gui.Console
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jalview.gui.ProgressBar
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jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
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jalview.gui.TreeCanvas
jalview.gui.TreeCanvas
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jalview.datamodel.ColumnSelection.IntList
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jalview.util.Platform
jalview.util.Platform
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jalview.gui.IdPanel
jalview.gui.IdPanel
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0.067264576.7%
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jalview.log.JLogger
jalview.log.JLogger
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com.stevesoft.pat.RegOpt
com.stevesoft.pat.RegOpt
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0.06474826.5%
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jalview.io.FileFormat
jalview.io.FileFormat
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ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
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0.061224496.1%
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jalview.gui.ViewSelectionMenu
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jalview.bin.Console
jalview.bin.Console
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jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
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jalview.datamodel.ContactMapHolder
jalview.datamodel.ContactMapHolder
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0.0576923085.8%
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jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
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0.0512820525.1%
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jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
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0.0496894425%
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jalview.bin.Cache
jalview.bin.Cache
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0.0482093654.8%
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jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
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0.0468754.7%
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
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0.043478264.3%
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jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
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0.0416666684.2%
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jalview.gui.StructureViewer
jalview.gui.StructureViewer
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0.0346534663.5%
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jalview.gui.SliderPanel
jalview.gui.SliderPanel
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0.031253.1%
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jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
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0.0310559013.1%
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jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
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0.0254237282.5%
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jalview.controller.AlignViewController
jalview.controller.AlignViewController
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jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
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jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
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0.0155642021.6%
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mc_view.PDBfile
mc_view.PDBfile
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jalview.datamodel.SearchResults
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jalview.gui.SeqPanel
jalview.gui.SeqPanel
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jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
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jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
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jalview.util.HttpUtils
jalview.util.HttpUtils
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jalview.bin.Jalview
jalview.bin.Jalview
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jalview.gui.SequenceFetcher
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jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
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jalview.gui.QuitHandler
jalview.gui.QuitHandler
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com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
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jalview.schemes.ResidueProperties
jalview.schemes.ResidueProperties
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0.00105042020.1%
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