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Programs fall into these general areas
General	BLAST, FASTA, ALIGN, LALIGN, ClustalW, MultAlin, Primer3, SACS Phylip, TOPO2 and Autoblast
GCG	SACS interface to selected programs, W2H interface to package
EMBOSS	W2H interface to package
TMD predictors	HMMTOP, Memsat, TMHMM

General
BLAST	This page allows the user to do BLAST searches, in addition to PHI-BLAST and PSI-BLAST searches.
FASTA	This page introduces FASTA and its family of related programs; FASTX, FASTY, FASTF, TFASTX, TFASTY, TFASTF and SSEARCH . Here you may search the NCBI BLAST databases and the GenBank/GenPept Divisions (ESTs excluded).
Alignment	ALIGN is for global pairwise alignments and LALIGN is for local pairwise alignments. This software is part of Wm. Pearson's FASTA distribution.
ClustalW	Output from the Multiple Sequence Alignment program ClustalW(v1.8) can be color coded with mview for easier reading.
MultAlin	MultAlin, a Multiple Sequence Alignment tool designed by Florence Corpet, offers several comparison tables and has a gif output file which can be color coded.
Primer3	Use this interface to design primers with Primer3, a program developed by the Whitehead Institute for Biomedical Research at MIT.
SACS Phylip	This is the BETA test for an interface which uses selected programs from the Phylip package. The Phylip suite of programs, designed by Dr. Joe Felsenstein of the Department of Genetics at the University of Washington, is widely used for phylogenetic analysis.
TOPO2	Display the topology of a transmembrane protein. [basic version] [advanced]
AutoBlast	This SACS-developed web interface automatically submits sequences to NCBI for BLAST processing at prescribed intervals. Users then receive notification of completed runs by email. Use this web page if you need to cancel a processing request.

GCG Programs
SACS GCG	SACS has developed this web interface to selected programs from the GCG suite of software.
W2H Interface	The W2H, a www interface to the GCG Sequence Analysis Software Package, was developed as a collaborative project between the European Bioinformatics Institute (EMBL-EBI) and the German Cancer Research Center (DKFZ).

EMBOSS Programs
W2H Interface	The W2H, a www interface to the EMBOSS Sequence Analysis Software Package, was developed as a collaborative project between the European Bioinformatics Institute (EMBL-EBI) and the German Cancer Research Center (DKFZ). [new version - more features than older one]

Transmembrane Segment Prediction Programs
HMMTOP	HMMTOP is a transmembrane prediction tool developed by G.E. Tusnady and I. Simon. TOPO2 displays the prediction.
Memsat	Memsat is a transmembrane prediction tool developed by David Jones. TOPO2 displays the prediction.
TMHMM	TMHMM is a transmembrane prediction tool developed by A. Krogh, B. Larsson, G. von Heijne, and E.L.L. Sonnhammer. TOPO2 displays the prediction.

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