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AbstractWorker
AccessGroup
AccessGroupDirectory
AccessRights
Address
Affiliation
Aggregation
Alignment
AlignmentFormatter
AlignmentReader
AlignSeqPos
AnnotatedBioSequence
Annotation
Annotations
AnnotationSupport
ArrayTable
BatchSubmissionDriver
BiologicalAlignment
BiologicalAnnotation
BiologicalAnnotations
BiologicalDescription
BiologicalOrigin
BiologicalSequence
BlastCommand
BlastContext
BlastGeneProduct
BlastOutput
BlastOutput
BlastOutput
BlastOutput_Hits
BlastOutput_HitsDescriptor
BlastOutput_Iterations
BlastOutput_Iterations
BlastOutput_IterationsDescriptor
BlastOutput_IterationsDescriptor
BlastOutput_IterationsType
BlastOutput_IterationsType
BlastOutput_IterationsTypeDescriptor
BlastOutput_IterationsTypeDescriptor
BlastOutput_Param
BlastOutput_Param
BlastOutput_Param
BlastOutput_ParamDescriptor
BlastOutput_ParamDescriptor
BlastOutput_ParamDescriptor
BlastOutput_ParamType
BlastOutput_ParamType
BlastOutput_ParamTypeDescriptor
BlastOutput_ParamTypeDescriptor
BlastOutput_Stat
BlastOutput_StatDescriptor
BlastOutputDescriptor
BlastOutputDescriptor
BlastOutputDescriptor
BlastResult
ca_position
ChunkIterator
cleanAlignment
CLI
client
CodonTable
Color_Annotation
ColumnTypeException
CommandLineOptions
CommandNotInstalled
CompareSeqSets
CompositionTableTreatment
CompositionTableTreatmentParameter
CreateSubmissionForm
CroverSeqLeakTest
cutal
Database
DatabaseErrorException
DatabaseNotAvailableException
DatabaseNotFound
DataPacket
DayhoffMatrix
DBConnection
DBConnection
DBConnectionPool
DBConstants
DBUtil
DBUtil
Description
DirectWorker
Disulfide_Annotation
Domain_Annotation
DSet
DSet
DSSPTableReader
DSSPtoTurns
ErrorOut
EventType
Extended_ColorAnnotation
ExtendedSS_Annotation
extract
ExtractAC
ExtractAcIdentity
ExtractDefLine
extractMotif
ExtractTurns
FailTaskEngine
FastaReader
FastaReaderType
FetchURL
FileContentTaskData
FileResult
FileTaskData
FillIn3DFourierOptions
FillInFourierOptions
FillInHydroOptions
FillInVolumeOptions
Filter
ForEachTest
FortranOutputParser
FragmentIdentityScoreEngine
GCContent
GeneProductPredictor
GenericSchemaManager
GenScan
getAAComposition
GetCeleraSeq
GroupOfTasks
Hello
HelloForm
HelloServletSessionManager
Hit
Hit
Hit
Hit_Hsps
Hit_Hsps
Hit_Hsps
Hit_HspsDescriptor
Hit_HspsDescriptor
Hit_HspsDescriptor
Hit_HspsType
Hit_HspsType
Hit_HspsTypeDescriptor
Hit_HspsTypeDescriptor
HitDescriptor
HitDescriptor
HitDescriptor
HitSummary
HitType
HitType
HitTypeDescriptor
HitTypeDescriptor
Hsp
Hsp
Hsp
HspDescriptor
HspDescriptor
HspDescriptor
HspType
HspType
HspTypeDescriptor
HspTypeDescriptor
HTMLAlignmentFormatter
HumanLocus
Hydrophobicity
HydrophobicityOptions
Identification
Implementation
Implementation
IMS
IMSConstants
IMSError
IMSException
IMSForm
IMSGenericForm
IMSManager
IMSObject
IMSSchemaManager
IMSServletSession
IMSServletSessionManager
IMSUser
IMSUserHome
IMSUserManager
IMSUserManagerTest
IMSUserSchemaManager
IMSUtil
InadequateBindingException
InadequateDestinationException
InadequateSourceException
IncorrectStateException
InputPhosphoParams
InsertSubmission
Inspect
InvalidColumnException
InvalidFieldLimits
InvalidLocationException
IRESanalysis
Iteration
Iteration
Iteration_Hits
Iteration_Hits
Iteration_HitsDescriptor
Iteration_HitsDescriptor
Iteration_HitsType
Iteration_HitsType
Iteration_HitsTypeDescriptor
Iteration_HitsTypeDescriptor
Iteration_Stat
Iteration_Stat
Iteration_StatDescriptor
Iteration_StatDescriptor
Iteration_StatType
Iteration_StatType
Iteration_StatTypeDescriptor
Iteration_StatTypeDescriptor
IterationDescriptor
IterationDescriptor
IterationType
IterationType
IterationTypeDescriptor
IterationTypeDescriptor
KeepAllFilter
LeakTest
LeakTester
LegalDisclaimer
ListTestServletSessionManager
Locus
Locus
LocusLinkFilter
LocusLinkTableReader
LocusSyntaxErrorException
LoginExpression
LoginForm
LongResult
mapcdna
Mapping
mapstrength
MapStrengthStats
MaskSequenceTaskData
MaskSequenceTaskEngine
Match
Matrix
MegablastHSIterator
MegablastTaskData
MegablastTaskEngine
Messages
MinesetTableReader
MinesetTableWriter
Motif
MultiplePartFileIterator
MultiTasks
Mutation_Annotation
MutationsToURLs
MutationToUrlConverter
NCBISequences
NilEngine
NoResult
NoSuchResidue
NotAVisualBean
ODMG
ODMG
OrderedTable
Origin
OriginFactory
ParallelTask
ParallelTasks
Parameters
Parameters
Parameters
ParametersDescriptor
ParametersDescriptor
ParametersDescriptor
ParametersType
ParametersType
ParametersTypeDescriptor
ParametersTypeDescriptor
Parser
Parser
Parser
Parser
Parser
PdbChainHomology
PdbDistances
PDBReader
PDBReaderOrigin
PDBReaderType
PhdHtmTM
PhosphoParams
PIRReader
PIRReaderType
RandomAccessAlignment
RandomSample
RangeNotFoundException
ReaderType
RegisterAffForm
RegisterUserForm
RegistrationForm
RemoveHTMLTags
Reporter
Rescheduler
Residue
ResidueAnnotation
ResidueComposition
ResidueExchangeMatrix
RMITask
RMIWorker
RobustParallelTask
RobustParallelTaskEngine
RootObject
RunnableTransactionDriver
RunnableTxnTest
ScanForTms
Scheduler
ScoreEngine
SearchKinase
SearchSelect
SearchSelectParams
SearchSubstrate
SecondaryStructure
SecondaryStructure_Annotation
SelectInteraction
seqinfo
Sequence
SequenceChunkIterator
SequenceID
SequenceIDHelper
SequenceIDHolder
SequenceOrigin_Annotation
SequenceReader
SequenceReaderFactory
SequenceReaderFactoryImpl
SequenceRepository
SequenceRepositoryHelper
SequenceRepositoryHolder
SequenceResult
SequenceTask
SequenceTaskData
SequenceTaskFailureException
SeqUtils
SerializedFileResult
ShowPReaction
sid
SimpleTM
SleepTaskEngine
smask
SNOmotif
SortTableTreatment
SosuiResult
splitfile
Statistics
Statistics
Statistics
StatisticsDescriptor
StatisticsDescriptor
StatisticsDescriptor
StatisticsType
StatisticsType
StatisticsTypeDescriptor
StatisticsTypeDescriptor
strim
StringAppender
StringConverter
StringResult
StubForSequenceRepository
Submission
SubmissionCatalog
SubmissionEvent
SubmissionHome
SubmissionManager
SubmissionOwnerNotFoundException
SubmissionSchemaManager
SubmissionSearch
sumColumns
SumSometimeTaskEngine
SumTaskData
SumTaskEngine
SurfaceAccessibility
SVGAlignmentFormatter
SVMInput
SVMScan
SwissProtReader
SwissProtReaderOrigin
SwissProtReaderType
SyntaxErrorException
SyntaxErrorException
Table
Table.RowIterator
TableReader
TableTreatment
TabTokenizer
Task
TaskControl
TaskData
TaskEngine
TaskFailedException
TaskListener
TaskManager
TaskManagerRMIServer
TaskManagerRMIServerImpl
TaskNotFoundException
TaskResult
TaskRunningException
TaskStatus
TaskWatch
TestFormatters
TestReuse
TestReuseServletSessionManager
TextAlignmentFormatter
ThreadLocalDBConnection
tidyHD
tidySeq
TIWebMinesetReader
TM_Annotation
TmDomain_Annotation
TmPredictor
TmPredictors
TMPropServletSession
TMPropServletSessionManager
TMPropStart
TooManyRescheduleException
ToTurnsTableTreatment
ToTurnsTableTreatmentParameter
Transaction
TransactionDriver
TransactionManager
TransactionNotFoundException
Treatment
TreatmentInterrupted
TurnAssemblerAggregationParameter
TurnDisplacementsTableTreatment
TypeMismatchException
UnknownSequence
UnknownSequenceHelper
UnknownSequenceHolder
UnsupportedColumnTypeException
UnsupportedFileFormatException
UnsupportedFormat
UnsupportedFormatException
UnsupportedOrganism
UnsupportedResidueType
UpdateProfileForm
UploadAlignment
UploadFile
URL_Annotation
UserDirectory
UserDriver
ValueComparator
ValueCopier
worker
WrapperFailed
WrongArgumentTypeException
WrongFileFormatException
XMLBlastHSIterator
XMLVersionNotSupportedException
_SequenceRepositoryImplBase