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jalview.io.DataSourceType
jalview.io.DataSourceType
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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.MapListType
jalview.xml.binding.jalview.MapListType
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1.0100%
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jalview.xml.binding.jalview.MapListType.MapListFrom
jalview.xml.binding.jalview.MapListType.MapListFrom
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1.0100%
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jalview.xml.binding.jalview.MapListType.MapListTo
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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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jalview.datamodel.GroupSetHolder
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1.0100%
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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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0.9494%
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jalview.xml.binding.jalview.AnnotationElement
jalview.xml.binding.jalview.AnnotationElement
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jalview.xml.binding.jalview.SequenceSet
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jalview.xml.binding.jalview.MatrixType
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com.stevesoft.pat.Rthings
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jalview.analysis.AverageDistanceEngine
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jalview.datamodel.Profiles
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jalview.xml.binding.jalview.JalviewModel.Viewport
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jalview.analysis.Conservation
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jalview.util.LinkedIdentityHashSet
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jalview.xml.binding.jalview.JalviewModel.JSeq
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jalview.analysis.TreeEngine
jalview.analysis.TreeEngine
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jalview.gui.FeatureRenderer
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jalview.workers.ConsensusThread
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jalview.ws.SequenceFetcher
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com.stevesoft.pat.oneChar
com.stevesoft.pat.oneChar
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com.stevesoft.pat.Bracket
com.stevesoft.pat.Bracket
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0.6565%
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jalview.xml.binding.jalview.Sequence
jalview.xml.binding.jalview.Sequence
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com.stevesoft.pat.wrap.StringWrap
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jalview.workers.ConservationThread
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com.stevesoft.pat.StrPos
com.stevesoft.pat.StrPos
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jalview.jbgui.GAlignFrame
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jalview.renderer.ScaleRenderer
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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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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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jalview.schemes.TaylorColourScheme
jalview.schemes.TaylorColourScheme
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0.550%
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jalview.schemes.FlowerColourScheme
jalview.schemes.FlowerColourScheme
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0.550%
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jalview.schemes.ZappoColourScheme
jalview.schemes.ZappoColourScheme
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0.550%
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jalview.schemes.NucleotideAmbiguityColourScheme
jalview.schemes.NucleotideAmbiguityColourScheme
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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.schemes.BlossomColourScheme
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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.util.MessageManager
jalview.util.MessageManager
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0.4761904847.6%
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jalview.datamodel.GroupSet
jalview.datamodel.GroupSet
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com.stevesoft.pat.parsePerl
com.stevesoft.pat.parsePerl
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0.448979644.9%
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jalview.xml.binding.jalview.MapOnAMatrixType
jalview.xml.binding.jalview.MapOnAMatrixType
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jalview.workers.AlignCalcManager
jalview.workers.AlignCalcManager
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0.4404761844%
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jalview.gui.ColourMenuHelper
jalview.gui.ColourMenuHelper
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jalview.project.Jalview2XML.forwardRef
jalview.project.Jalview2XML.forwardRef
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0.4285714342.9%
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jalview.gui.SequenceRenderer
jalview.gui.SequenceRenderer
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0.4182692241.8%
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jalview.util.ShortcutKeyMaskExWrapper11
jalview.util.ShortcutKeyMaskExWrapper11
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0.4166666641.7%
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jalview.io.FileFormats
jalview.io.FileFormats
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0.440%
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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.log.JalviewAppender
jalview.log.JalviewAppender
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0.388888938.9%
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jalview.io.FileLoader
jalview.io.FileLoader
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0.3879598738.8%
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com.stevesoft.pat.Range
com.stevesoft.pat.Range
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0.3863636338.6%
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com.stevesoft.pat.Pattern
com.stevesoft.pat.Pattern
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0.3680555536.8%
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jalview.gui.AlignViewport
jalview.gui.AlignViewport
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0.365296836.5%
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jalview.viewmodel.AlignmentViewport
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jalview.schemes.ResidueColourScheme
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0.3571428735.7%
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jalview.io.AlignFile
jalview.io.AlignFile
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0.356164435.6%
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jalview.project.Jalview2XML
jalview.project.Jalview2XML
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0.3494006734.9%
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jalview.ws.jws2.MsaWSClient
jalview.ws.jws2.MsaWSClient
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0.348993334.9%
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jalview.datamodel.AlignmentAnnotation
jalview.datamodel.AlignmentAnnotation
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0.348314634.8%
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jalview.datamodel.ResidueCount
jalview.datamodel.ResidueCount
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0.3418181834.2%
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com.stevesoft.pat.Or
com.stevesoft.pat.Or
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0.3205128332.1%
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jalview.analysis.AAFrequency
jalview.analysis.AAFrequency
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0.3189300331.9%
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jalview.util.Comparison
jalview.util.Comparison
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0.3188976331.9%
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jalview.datamodel.ContactMatrix
jalview.datamodel.ContactMatrix
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0.3161764731.6%
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jalview.io.FastaFile
jalview.io.FastaFile
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0.315315331.5%
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jalview.ws.rest.RestServiceDescription
jalview.ws.rest.RestServiceDescription
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0.31531.5%
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jalview.io.IdentifyFile
jalview.io.IdentifyFile
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0.3142857331.4%
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jalview.gui.AlignmentPanel
jalview.gui.AlignmentPanel
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0.3050647730.5%
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com.stevesoft.pat.OrMark
com.stevesoft.pat.OrMark
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0.330%
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jalview.viewmodel.ViewportRanges
jalview.viewmodel.ViewportRanges
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0.2871287228.7%
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jalview.ws.dbsources.EmblCdsSource
jalview.ws.dbsources.EmblCdsSource
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0.285714328.6%
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jalview.renderer.ResidueColourFinder
jalview.renderer.ResidueColourFinder
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0.285714328.6%
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jalview.datamodel.Annotation
jalview.datamodel.Annotation
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0.285714328.6%
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jalview.schemes.JalviewColourScheme
jalview.schemes.JalviewColourScheme
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0.285714328.6%
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jalview.io.FileParse
jalview.io.FileParse
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0.2813370528.1%
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jalview.datamodel.Sequence
jalview.datamodel.Sequence
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0.2785467227.9%
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jalview.ws.jws2.JabaPreset
jalview.ws.jws2.JabaPreset
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0.2727272827.3%
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jalview.workers.AlignCalcWorker
jalview.workers.AlignCalcWorker
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0.2619047826.2%
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jalview.gui.PaintRefresher
jalview.gui.PaintRefresher
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0.253521125.4%
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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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com.stevesoft.pat.Regex
com.stevesoft.pat.Regex
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0.2463636424.6%
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jalview.gui.ScalePanel
jalview.gui.ScalePanel
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0.2460937524.6%
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jalview.gui.IdCanvas
jalview.gui.IdCanvas
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0.2456140424.6%
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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.datamodel.BinaryNode
jalview.datamodel.BinaryNode
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0.2333333323.3%
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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.gui.IdwidthAdjuster
jalview.gui.IdwidthAdjuster
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0.223684222.4%
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jalview.datamodel.ContactMatrixI
jalview.datamodel.ContactMatrixI
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0.2233009622.3%
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jalview.analysis.AnnotationSorter
jalview.analysis.AnnotationSorter
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0.2118226621.2%
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jalview.ws.jws2.jabaws2.Jws2Instance
jalview.ws.jws2.jabaws2.Jws2Instance
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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.datamodel.Alignment
jalview.datamodel.Alignment
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0.2048417220.5%
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jalview.schemes.ColourSchemeProperty
jalview.schemes.ColourSchemeProperty
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0.1944444519.4%
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jalview.ws.datamodel.alphafold.MappableContactMatrix
jalview.ws.datamodel.alphafold.MappableContactMatrix
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0.1924686119.2%
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jalview.schemes.IdColourScheme
jalview.schemes.IdColourScheme
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0.1739130517.4%
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jalview.ws.datamodel.alphafold.PAEContactMatrix
jalview.ws.datamodel.alphafold.PAEContactMatrix
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0.1681415916.8%
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jalview.log.JLogger
jalview.log.JLogger
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0.1648351716.5%
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jalview.gui.AlignFrame
jalview.gui.AlignFrame
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0.1624472616.2%
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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.bin.Console
jalview.bin.Console
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0.1527093615.3%
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jalview.util.Format
jalview.util.Format
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0.1490683314.9%
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jalview.schemes.TCoffeeColourScheme
jalview.schemes.TCoffeeColourScheme
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0.1475409914.8%
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jalview.gui.Desktop.MyDesktopPane
jalview.gui.Desktop.MyDesktopPane
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0.1428571514.3%
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jalview.ws.jws2.Jws2Discoverer
jalview.ws.jws2.Jws2Discoverer
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0.1425742514.3%
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com.stevesoft.pat.Branch
com.stevesoft.pat.Branch
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0.140939614.1%
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com.stevesoft.pat.patInt
com.stevesoft.pat.patInt
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0.137513.8%
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jalview.gui.Desktop
jalview.gui.Desktop
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0.1367763913.7%
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jalview.renderer.ResidueShader
jalview.renderer.ResidueShader
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0.1280487812.8%
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jalview.io.NewickFile
jalview.io.NewickFile
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0.1270207912.7%
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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.datamodel.features.SequenceFeatures
jalview.datamodel.features.SequenceFeatures
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0.1210191112.1%
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com.stevesoft.pat.FastMulti
com.stevesoft.pat.FastMulti
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0.1203703712%
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jalview.io.FormatAdapter
jalview.io.FormatAdapter
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0.1212%
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jalview.util.StringUtils
jalview.util.StringUtils
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0.1212%
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jalview.schemes.Blosum62ColourScheme
jalview.schemes.Blosum62ColourScheme
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0.1176470611.8%
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jalview.analysis.scoremodels.ScoreModels
jalview.analysis.scoremodels.ScoreModels
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0.11538461611.5%
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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.ShortcutKeyMaskExWrapper
jalview.util.ShortcutKeyMaskExWrapper
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0.1111111111.1%
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com.stevesoft.pat.RegRes
com.stevesoft.pat.RegRes
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0.1086956510.9%
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jalview.io.FileFormat
jalview.io.FileFormat
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0.1085271310.9%
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jalview.log.JLoggerLog4j
jalview.log.JLoggerLog4j
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0.10679611610.7%
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jalview.ws.rest.params.AnnotationFile
jalview.ws.rest.params.AnnotationFile
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0.10256410410.3%
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jalview.datamodel.ContactListImpl
jalview.datamodel.ContactListImpl
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0.1016949110.2%
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jalview.util.QuickSort
jalview.util.QuickSort
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0.10032362510%
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jalview.io.AppletFormatAdapter
jalview.io.AppletFormatAdapter
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0.0993788849.9%
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jalview.util.ColorUtils
jalview.util.ColorUtils
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0.096774199.7%
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jalview.gui.SeqCanvas
jalview.gui.SeqCanvas
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0.093186379.3%
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jalview.structure.StructureSelectionManager
jalview.structure.StructureSelectionManager
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0.091954029.2%
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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.ws.dbsources.Xfam
jalview.ws.dbsources.Xfam
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0.086956528.7%
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jalview.datamodel.HiddenColumns
jalview.datamodel.HiddenColumns
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0.084905668.5%
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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
jalview.ext.ensembl.EnsemblSequenceFetcher
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0.0833333368.3%
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jalview.gui.Console
jalview.gui.Console
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0.082568818.3%
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jalview.schemes.RNAHelicesColour
jalview.schemes.RNAHelicesColour
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0.082191788.2%
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jalview.gui.ProgressBar
jalview.gui.ProgressBar
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0.081300818.1%
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jalview.util.MapList
jalview.util.MapList
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0.077881627.8%
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jalview.schemes.ColourSchemes
jalview.schemes.ColourSchemes
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0.070175447%
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jalview.gui.IdPanel
jalview.gui.IdPanel
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0.067264576.7%
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jalview.schemes.PIDColourScheme
jalview.schemes.PIDColourScheme
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0.066666676.7%
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jalview.analysis.CrossRef
jalview.analysis.CrossRef
|
0.063524596.4%
|
|
|
jalview.analysis.scoremodels.ScoreMatrix
jalview.analysis.scoremodels.ScoreMatrix
|
0.0617283966.2%
|
|
|
ext.vamsas.ServiceHandle
ext.vamsas.ServiceHandle
|
0.061224496.1%
|
|
|
jalview.gui.ViewSelectionMenu
jalview.gui.ViewSelectionMenu
|
0.059405945.9%
|
|
|
jalview.ws.seqfetcher.ASequenceFetcher
jalview.ws.seqfetcher.ASequenceFetcher
|
0.0577777775.8%
|
|
|
jalview.gui.AnnotationPanel
jalview.gui.AnnotationPanel
|
0.0571736775.7%
|
|
|
jalview.util.Platform
jalview.util.Platform
|
0.0566037745.7%
|
|
|
jalview.datamodel.ColumnSelection.IntList
jalview.datamodel.ColumnSelection.IntList
|
0.0560747655.6%
|
|
|
jalview.ws.seqfetcher.DbSourceProxyImpl
jalview.ws.seqfetcher.DbSourceProxyImpl
|
0.0540540555.4%
|
|
|
jalview.ws.jws1.Discoverer
jalview.ws.jws1.Discoverer
|
0.0512820525.1%
|
|
|
jalview.analysis.GeneticCodes
jalview.analysis.GeneticCodes
|
0.0496894425%
|
|
|
jalview.datamodel.SecondaryStructureCount
jalview.datamodel.SecondaryStructureCount
|
0.0468754.7%
|
|
|
jalview.util.DBRefUtils
jalview.util.DBRefUtils
|
0.045317224.5%
|
|
|
jalview.xml.binding.jalview.ObjectFactory
jalview.xml.binding.jalview.ObjectFactory
|
0.0427350444.3%
|
|
|
jalview.ws.dbsources.Pdb
jalview.ws.dbsources.Pdb
|
0.042553194.3%
|
|
|
jalview.ws.jws2.JabaParamStore
jalview.ws.jws2.JabaParamStore
|
0.0416666684.2%
|
|
|
jalview.bin.Cache
jalview.bin.Cache
|
0.0385674953.9%
|
|
|
jalview.analysis.AlignmentUtils
jalview.analysis.AlignmentUtils
|
0.037292823.7%
|
|
|
jalview.gui.SliderPanel
jalview.gui.SliderPanel
|
0.0348837233.5%
|
|
|
jalview.ws.jws1.JPredClient
jalview.ws.jws1.JPredClient
|
0.0310559013.1%
|
|
|
jalview.datamodel.HiddenSequences
jalview.datamodel.HiddenSequences
|
0.027397262.7%
|
|
|
jalview.controller.AlignViewController
jalview.controller.AlignViewController
|
0.0237288142.4%
|
|
|
jalview.math.Matrix
jalview.math.Matrix
|
0.0196078442%
|
|
|
jalview.schemes.ClustalxColourScheme
jalview.schemes.ClustalxColourScheme
|
0.0169491531.7%
|
|
|
jalview.ws.dbsources.Uniprot
jalview.ws.dbsources.Uniprot
|
0.0155642021.6%
|
|
|
jalview.util.HttpUtils
jalview.util.HttpUtils
|
0.0130718961.3%
|
|
|
jalview.analysis.AlignSeq
jalview.analysis.AlignSeq
|
0.0128205131.3%
|
|
|
jalview.gui.SeqPanel
jalview.gui.SeqPanel
|
0.0125082291.3%
|
|
|
jalview.io.SequenceAnnotationReport
jalview.io.SequenceAnnotationReport
|
0.0122699381.2%
|
|
|
jalview.bin.Jalview
jalview.bin.Jalview
|
0.0117328521.2%
|
|
|
jalview.renderer.AnnotationRenderer
jalview.renderer.AnnotationRenderer
|
0.0116071431.2%
|
|
|
jalview.gui.AnnotationLabels
jalview.gui.AnnotationLabels
|
0.0108932461.1%
|
|
|
jalview.datamodel.ColumnSelection
jalview.datamodel.ColumnSelection
|
0.0103092781%
|
|
|
jalview.gui.SequenceFetcher
jalview.gui.SequenceFetcher
|
0.0089285720.9%
|
|
|
jalview.bin.argparser.BootstrapArgs
jalview.bin.argparser.BootstrapArgs
|
0.0082644620.8%
|
|
|
jalview.ext.ensembl.EnsemblGene
jalview.ext.ensembl.EnsemblGene
|
0.0081632650.8%
|
|
|
jalview.gui.QuitHandler
jalview.gui.QuitHandler
|
0.0077519380.8%
|
|
|
jalview.renderer.seqfeatures.FeatureRenderer
jalview.renderer.seqfeatures.FeatureRenderer
|
0.007547170.8%
|
|
|
com.stevesoft.pat.CaseMgr
com.stevesoft.pat.CaseMgr
|
0.00278551530.3%
|
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