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com.stevesoft.pat.patInf
com.stevesoft.pat.patInf
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jalview.xml.binding.jalview.AnnotationElement
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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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1.0100%
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jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids
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1.0100%
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jalview.xml.binding.jalview.JalviewModel.Tree
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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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1.0100%
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jalview.xml.binding.jalview.Pdbentry.Property
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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
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1.0100%
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jalview.schemes.ZappoColourScheme
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1.0100%
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jalview.jbgui.GAlignmentPanel
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0.941176594.1%
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jalview.xml.binding.jalview.JalviewModel.JSeq
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jalview.analysis.Conservation
jalview.analysis.Conservation
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0.89062589.1%
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jalview.xml.binding.jalview.JalviewModel.JGroup
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0.8823529588.2%
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jalview.xml.binding.jalview.JalviewModel.Viewport
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jalview.xml.binding.jalview.Annotation
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0.87587.5%
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jalview.xml.binding.jalview.SequenceSet
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jalview.util.QuickSort.IntComparator
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com.stevesoft.pat.OrMark
com.stevesoft.pat.OrMark
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jalview.viewmodel.styles.ViewStyle
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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.xml.binding.jalview.Feature.OtherData
jalview.xml.binding.jalview.Feature.OtherData
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0.833333383.3%
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jalview.datamodel.Profiles
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jalview.xml.binding.jalview.JalviewModel
jalview.xml.binding.jalview.JalviewModel
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jalview.xml.binding.jalview.JalviewModel.JSeq.Pdbids.StructureState
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jalview.datamodel.VisibleContigsIterator
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jalview.datamodel.Profile
jalview.datamodel.Profile
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com.stevesoft.pat.SubMark
com.stevesoft.pat.SubMark
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0.880%
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jalview.datamodel.StructureViewerModel
jalview.datamodel.StructureViewerModel
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0.880%
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jalview.util.LinkedIdentityHashSet
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jalview.workers.ConsensusThread
jalview.workers.ConsensusThread
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jalview.datamodel.RangeIterator
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jalview.xml.binding.jalview.Sequence.DBRef
jalview.xml.binding.jalview.Sequence.DBRef
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0.7575%
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jalview.structures.models.SequenceStructureBindingModel
jalview.structures.models.SequenceStructureBindingModel
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com.stevesoft.pat.wrap.StringWrap
com.stevesoft.pat.wrap.StringWrap
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jalview.schemes.ResidueColourScheme
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0.738095273.8%
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jalview.gui.FeatureRenderer
jalview.gui.FeatureRenderer
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0.7142857371.4%
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jalview.xml.binding.jalview.Sequence
jalview.xml.binding.jalview.Sequence
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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.gui.JalviewAppender
jalview.gui.JalviewAppender
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0.770%
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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
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0.694444469.4%
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jalview.jbgui.GStructureViewer
jalview.jbgui.GStructureViewer
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0.689655269%
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com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
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0.685714368.6%
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jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
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0.68387168.4%
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jalview.datamodel.PDBEntry
jalview.datamodel.PDBEntry
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0.681528768.2%
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jalview.ws.SequenceFetcher
jalview.ws.SequenceFetcher
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0.678571467.9%
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jalview.gui.IdCanvas
jalview.gui.IdCanvas
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0.678160967.8%
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jalview.gui.TreePanel.TreeLoader
jalview.gui.TreePanel.TreeLoader
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0.6562565.6%
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jalview.workers.ConservationThread
jalview.workers.ConservationThread
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0.655172465.5%
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jalview.util.CaseInsensitiveString
jalview.util.CaseInsensitiveString
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0.6521739465.2%
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com.stevesoft.pat.Range
com.stevesoft.pat.Range
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0.636363663.6%
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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.analysis.SequenceIdMatcher.SeqIdName
jalview.analysis.SequenceIdMatcher.SeqIdName
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0.605263260.5%
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jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
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0.589648859%
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jalview.jbgui.GAlignFrame
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0.586826358.7%
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jalview.jbgui.GTreePanel
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0.5858%
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jalview.renderer.ScaleRenderer
jalview.renderer.ScaleRenderer
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0.5656%
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jalview.project.Jalview2XML
jalview.project.Jalview2XML
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0.542593154.3%
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mc_view.PDBChain
mc_view.PDBChain
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0.5359281353.6%
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jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
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0.5352112753.5%
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jalview.datamodel.BinaryNode
jalview.datamodel.BinaryNode
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0.5333333653.3%
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jalview.io.NewickFile
jalview.io.NewickFile
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0.529953953%
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jalview.ext.jmol.JmolParser
jalview.ext.jmol.JmolParser
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0.519108351.9%
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com.stevesoft.pat.Boundary
com.stevesoft.pat.Boundary
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0.518518551.9%
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jalview.gui.AppJmolBinding
jalview.gui.AppJmolBinding
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0.550%
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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
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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
jalview.viewmodel.ViewportProperties
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0.550%
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jalview.xml.binding.jalview.VAMSAS
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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jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
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0.550%
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jalview.schemes.PurinePyrimidineColourScheme
jalview.schemes.PurinePyrimidineColourScheme
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0.550%
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jalview.schemes.NucleotideColourScheme
jalview.schemes.NucleotideColourScheme
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0.550%
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jalview.analysis.SequenceIdMatcher
jalview.analysis.SequenceIdMatcher
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0.550%
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com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
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0.4930555549.3%
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jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
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0.4855769348.6%
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jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
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0.4709302247.1%
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jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
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0.466101746.6%
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jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
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0.4605936446.1%
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jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
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0.4551724245.5%
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jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
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0.4523809645.2%
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jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
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0.4521739245.2%
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com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
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0.448979644.9%
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jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
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0.4476534444.8%
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jalview.viewmodel.AlignmentViewport
jalview.viewmodel.AlignmentViewport
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0.43973444%
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jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
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0.4373716743.7%
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jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
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0.4296774343%
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
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0.4166666641.7%
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jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
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0.4158415841.6%
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jalview.datamodel.SequenceNode
jalview.datamodel.SequenceNode
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0.4146341441.5%
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com.stevesoft.pat.Or
com.stevesoft.pat.Or
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0.4102564241%
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jalview.analysis.TreeModel
jalview.analysis.TreeModel
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0.406374540.6%
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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.datamodel.Range
jalview.datamodel.Range
|
0.388888938.9%
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
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0.3810264538.1%
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jalview.datamodel.SequenceFeature
jalview.datamodel.SequenceFeature
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0.3799283238%
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jalview.io.StructureFile
jalview.io.StructureFile
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0.379487237.9%
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jalview.ext.jmol.JalviewJmolBinding
jalview.ext.jmol.JalviewJmolBinding
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0.3789237737.9%
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jalview.util.Format
jalview.util.Format
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0.3685300436.9%
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jalview.gui.AlignViewport
jalview.gui.AlignViewport
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0.364928936.5%
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jalview.util.MessageManager
jalview.util.MessageManager
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0.3571428735.7%
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jalview.util.QuickSort
jalview.util.QuickSort
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0.352750835.3%
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jalview.gui.StructureViewerBase
jalview.gui.StructureViewerBase
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0.3506493635.1%
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
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0.3481575534.8%
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jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
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0.3378995433.8%
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
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0.337316233.7%
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jalview.datamodel.features.FeatureStore
jalview.datamodel.features.FeatureStore
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0.3353474433.5%
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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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0.3333%
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jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
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0.3282442732.8%
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jalview.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
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0.3248407532.5%
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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.datamodel.Annotation
jalview.datamodel.Annotation
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0.3142857331.4%
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jalview.datamodel.PDBEntry.Type
jalview.datamodel.PDBEntry.Type
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0.312531.2%
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jalview.io.FileLoader
jalview.io.FileLoader
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0.3045112830.5%
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jalview.util.Comparison
jalview.util.Comparison
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0.2994350229.9%
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jalview.ws.jws2.SequenceAnnotationWSClient
jalview.ws.jws2.SequenceAnnotationWSClient
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0.2903225729%
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jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
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0.285714328.6%
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mc_view.Atom
mc_view.Atom
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0.282051328.2%
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
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0.2727272827.3%
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jalview.datamodel.DBRefEntry
jalview.datamodel.DBRefEntry
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0.2713178427.1%
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
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0.2608695626.1%
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jalview.gui.TreePanel
jalview.gui.TreePanel
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0.259927826%
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jalview.gui.JvSwingUtils
jalview.gui.JvSwingUtils
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0.258503425.9%
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jalview.structure.StructureImportSettings
jalview.structure.StructureImportSettings
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0.258064525.8%
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
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0.2566037825.7%
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jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
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0.2528735725.3%
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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.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
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0.2444444424.4%
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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
jalview.ws.rest.params.Alignment
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0.2435897424.4%
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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.gui.AnnotationPanel
jalview.gui.AnnotationPanel
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0.238759723.9%
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jalview.datamodel.SequenceGroup
jalview.datamodel.SequenceGroup
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0.2385008523.9%
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jalview.io.FileParse
jalview.io.FileParse
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0.2380952423.8%
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jalview.datamodel.Alignment
jalview.datamodel.Alignment
|
0.2369714823.7%
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jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
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0.2336633723.4%
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jalview.datamodel.SequenceCursor
jalview.datamodel.SequenceCursor
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0.2333333323.3%
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jalview.gui.AppJmol
jalview.gui.AppJmol
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0.2281368822.8%
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jalview.structures.models.AAStructureBindingModel
jalview.structures.models.AAStructureBindingModel
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0.2273838722.7%
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jalview.datamodel.features.FeatureAttributes
jalview.datamodel.features.FeatureAttributes
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0.224806222.5%
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jalview.ws.jws2.Jws2Client
jalview.ws.jws2.Jws2Client
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0.2202380922%
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jalview.structure.StructureMapping
jalview.structure.StructureMapping
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0.2176165721.8%
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jalview.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
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0.2142857221.4%
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jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
|
0.2139037421.4%
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jalview.datamodel.features.FeatureAttributes.AttributeData
jalview.datamodel.features.FeatureAttributes.AttributeData
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0.2127659621.3%
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jalview.viewmodel.seqfeatures.FeaturesDisplayed
jalview.viewmodel.seqfeatures.FeaturesDisplayed
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0.2068965620.7%
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jalview.ws.rest.InputType
jalview.ws.rest.InputType
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0.2056074720.6%
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jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
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0.2040816420.4%
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com.stevesoft.pat.patInt
com.stevesoft.pat.patInt
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0.220%
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jalview.util.StringUtils
jalview.util.StringUtils
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0.220%
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jalview.ws.dbsources.EmblSource
jalview.ws.dbsources.EmblSource
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0.1818181918.2%
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jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
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0.1803278618%
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jalview.gui.Desktop
jalview.gui.Desktop
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jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
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0.176470617.6%
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jalview.io.IdentifyFile
jalview.io.IdentifyFile
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0.1760563417.6%
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jalview.gui.AlignFrame
jalview.gui.AlignFrame
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0.1648221316.5%
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jalview.ws.jws1.WS1Client
jalview.ws.jws1.WS1Client
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0.1616%
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jalview.gui.Desktop.MyDesktopManager
jalview.gui.Desktop.MyDesktopManager
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0.1555555615.6%
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jalview.viewmodel.seqfeatures.FeatureRendererSettings
jalview.viewmodel.seqfeatures.FeatureRendererSettings
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0.1555555615.6%
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jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
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0.1538461615.4%
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jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
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0.1533646315.3%
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jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
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0.148584914.9%
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jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
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0.1428571514.3%
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com.stevesoft.pat.Branch
com.stevesoft.pat.Branch
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0.140939614.1%
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jalview.io.AlignFile
jalview.io.AlignFile
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0.1349206413.5%
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jalview.util.MapList
jalview.util.MapList
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0.1339130413.4%
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jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
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0.1333333413.3%
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jalview.ws.rest.params.SeqGroupIndexVector
jalview.ws.rest.params.SeqGroupIndexVector
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0.12408759412.4%
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jalview.gui.Console
jalview.gui.Console
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0.12380952412.4%
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jalview.analysis.CrossRef
jalview.analysis.CrossRef
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0.1229508212.3%
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jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
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0.1219512212.2%
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jalview.ws.rest.RestClient
jalview.ws.rest.RestClient
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0.11538461611.5%
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jalview.util.ColorUtils
jalview.util.ColorUtils
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0.1117318411.2%
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jalview.util.ShortcutKeyMaskExWrapper
jalview.util.ShortcutKeyMaskExWrapper
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0.1111111111.1%
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jalview.ws.sifts.SiftsSettings
jalview.ws.sifts.SiftsSettings
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0.1111111111.1%
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jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
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0.1095890411%
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jalview.gui.ProgressBar
jalview.gui.ProgressBar
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0.1084337410.8%
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jalview.viewmodel.seqfeatures.FeatureRendererModel
jalview.viewmodel.seqfeatures.FeatureRendererModel
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0.1083202510.8%
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jalview.schemes.FeatureColour
jalview.schemes.FeatureColour
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0.10736842510.7%
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jalview.util.DBRefUtils
jalview.util.DBRefUtils
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0.1067073210.7%
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jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
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0.1028806610.3%
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jalview.gui.TreeCanvas
jalview.gui.TreeCanvas
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0.10256410410.3%
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jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
|
0.10256410410.3%
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jalview.datamodel.Mapping
jalview.datamodel.Mapping
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0.10126582510.1%
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jalview.structure.StructureCommand
jalview.structure.StructureCommand
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0.098591559.9%
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com.stevesoft.pat.Replacer
com.stevesoft.pat.Replacer
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0.091891899.2%
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com.stevesoft.pat.ReplaceRule
com.stevesoft.pat.ReplaceRule
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0.08771938.8%
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jalview.ext.ensembl.EnsemblSequenceFetcher
jalview.ext.ensembl.EnsemblSequenceFetcher
|
0.0833333368.3%
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jalview.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
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0.076923087.7%
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jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
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0.074766357.5%
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jalview.util.Platform
jalview.util.Platform
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0.074626867.5%
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jalview.io.FileFormat
jalview.io.FileFormat
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0.068376076.8%
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com.stevesoft.pat.RegOpt
com.stevesoft.pat.RegOpt
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0.06474826.5%
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jalview.gui.IdPanel
jalview.gui.IdPanel
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0.061983476.2%
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ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
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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
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0.0577777775.8%
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jalview.bin.Cache
jalview.bin.Cache
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0.0554272535.5%
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jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
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0.0540540555.4%
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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.xml.binding.jalview.ObjectFactory
jalview.xml.binding.jalview.ObjectFactory
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0.0450450444.5%
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
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0.0440251574.4%
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jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
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0.042553194.3%
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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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0.0382513663.8%
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jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0319148943.2%
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jalview.gui.SliderPanel
jalview.gui.SliderPanel
|
0.0317460343.2%
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jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
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0.0310559013.1%
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jalview.controller.AlignViewController
jalview.controller.AlignViewController
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0.0275590552.8%
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jalview.structure.StructureCommandsBase
jalview.structure.StructureCommandsBase
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0.0252.5%
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jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
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0.0206611572.1%
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jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
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0.0196078442%
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jalview.datamodel.SearchResults
jalview.datamodel.SearchResults
|
0.019230771.9%
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mc_view.PDBfile
mc_view.PDBfile
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0.0150375941.5%
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jalview.gui.SeqPanel
jalview.gui.SeqPanel
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0.0132127951.3%
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jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.01302931551.3%
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jalview.bin.Jalview
jalview.bin.Jalview
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0.0115702481.2%
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jalview.ext.jmol.JmolCommands
jalview.ext.jmol.JmolCommands
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0.0108695651.1%
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jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
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0.00932400950.9%
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jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
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0.0081632650.8%
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com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
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0.00278551530.3%
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jalview.schemes.ResidueProperties
jalview.schemes.ResidueProperties
|
0.00103039670.1%
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