No	Name	Description
1	NCBI	GenBank at the National Center of Biotechnology Information, National Library of Medicine, Washington, DC
2	EMBL	European Molecular Biology Laboratory (EMBL) Outstation at Hixton, England
3	DDBJ	DNA DataBank of Japan (DDBJ) at Mishima, Japan
4	PIR	Protein International Resource (PIR) database at the National Biomedical Research Foundation in Washington, DC
5	SwissProt	The SwissProt protein sequence database at ISREC, Swiss Institute for Experimental Cancer Research in Epalinges/Lausanne
6	SRS	The Sequence Retrieval System (SRS) at the European Bioinformatics Institute allows both simple and complex concurrent searches of one or more sequence databases.
7	Bayes block aligner	Zhu et al. (1998)
8	BCM Search Launcher: Pairwise sequence alignment	see Web site
9	SIMMLocal similarity program for finding alternative alignments	Huang et al. (1990); Huang and Miller (1991); Pearson and Miller (1992)
10	Global alignment programs (GAP, NAP)	Huang (1994)
11	FASTA program suite	Pearson and Miller (1992); Pearson (1996)
12	BLAST 2 sequence alignment (BLASTN, BLASTP)	Altschul et al. (1990)
13	Likelihood-weighted sequence alignment (lwa)	see Web site
14	CLUSTALW or CLUSTALX	Thompson et al. (1994a, 1997); Higgins et al. (1996)
15	MSA	Lipman et al. (1989);Gupta et al. (1995)
16	PRALINE	Heringa (1999)
17	DIALIGN segment alignment	Morgenstern et al. (1996)
18	Parallel PRRN progressive global alignment	Gotoh (1996)
19	SAGA genetic algorithm	Notredame and Higgins (1996)
20	Aligned Segment Statistical Evaluation Tool (Asset)	Neuwald and Green (1994)

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