Sitios WEB que permiten realizar el alineamiento múltiple de secuencias
Alineamientos Globales que incluyen métodos progresivos
Nombre   Localización página Web y/o comentarios   Referencias
CLUSTALW or CLUSTALX (el último usa una ventana gráfica)

Para obtener una copia de ClustalW para DOS a,d

Para obtener una copia de ClustalX para DOS

 Thompson et al. (1994a, 1997); Higgins et al. (1996)
MSA (uno de los programas clásicos) http://www.psc.edu/b
http://www.ibc.wustl.edu/ibc/msa.htmlc
ftp://fastlink.nih.gov/pub/msa		 Lipman et al. (1989);Gupta et al. (1995)
PRALINE Esta página permite al mismo tiempo hacer predicciones de estructuras, representación con colores, dibujar un arbol genealógico, etc. Heringa (1999)
Programas que usan Métodos Iterativos
Nombre   Localización página Web   Referencias
DIALIGN (alineamientos de segmentos) http://www.gsf.de/biodv/dialign.html Morgenstern et al. (1996)
MultAlin http://protein.toulouse.inra.fr/multalin.html Corpet (1988)
Parallel PRRN progressive global alignment http://prrn.ims.u-tokyo.ac.jp/ Gotoh (1996)
Algoritmo genético SAGA http://igs-server.cnrs-mrs.fr/~cnotred/
Projects_home_page/saga_home_page.html		 Notredame and Higgins (1996)
Alineamiento Local de proteínas
Nombre   Localización página Web   Referencias
Aligned Segment Statistical Evaluation Tool (Asset) FTP to ncbi.nlm.nih.gov/pub/neuwald/asset Neuwald and Green (1994)
Servidor WEB de BLOCKS http://blocks.fhcrc.org/blocks/ Henikoff and Henikoff (1991, 1992)
Servidor WEB de eMOTIF http://dna.Stanford.EDU/emotif/ Nevill-Manning et al. (1998)
GIBBS, the Gibbs sampler statistical method FTP a ncbi.nlm.nih.gov/pub/neuwald/gibbs9_95/ Lawrence et al. (1993); Liu et al. (1995); Neuwald et al. (1995)
HMMER hidden Markov model software http://hmmer.wustl.edu/ Eddy (1998)
MACAW, un programa para el análisis y alineamiento de secuencias

Una versión del programa para Windows se puede obtener

 

 Schuler et al. (1991)
Sitio WEB del programa MEME, que usa un método de maximización de probabilidades http://meme.sdsc.edu/meme/website/ Bailey and Elkan (1995); Grundy et al. (1996, 1997); Bailey and Gribskov (1998)
Análisis de Perfiles en la Universidad UCSDa,e http://www.sdsc.edu/projects/profile/ Gribskov and Veretnik (1996)
SAM hidden Markov model Web site http://www.cse.ucsc.edu/research/compbio/sam.html Krogh et al. (1994); Hughey and Krogh (1996)
    a Lists of additional Web sites for msa are maintained at: http://www.ebi.ac.uk/biocat/, http://www.hgmp.mrc.ac.uk/Registered/Menu/prot-mult.html, http://www.hum-molgen.de/BioLinks/Biocomp.html, http://biocenter.helsinki.fi/bi/rnd/biocomp/. Reviews on the performance of msa software are given in McClure et al. (1994; progressive alignment methods), Gotoh (1996) and Thompson et al. (1999), a review of Web sites is given in Briffeuil et al. (1998) and a review on iterative algorithms is given in Hirosawa et al. (1995) and Gotoh (1999). The performance of msa programs is commonly assessed by comparing the computed msa with a structural alignment of the proteins and by other objective methods (Notredame et al. 1998). Many of these programs are computationally complex and must be set up on a local site.
    b The Biomedical Supercomputing facility at the University of Pittsburgh Supercomputing Facility provides accounts (see http://www.psc.edu/biomed/service/sar/grants.html) that provide access to several different versions of MSA and profile analysis. MSA 50 150 will align no more than 50 sequences each less than 150 residues long, MSA 25 500 will align no more than 25 sequences each less than 200 residues long, and MSA10 1000 will align no more than 10 sequences each less than 1000 long.
    c El servidor MSA de la Universidad de alineará hasta un máximo de 8 secuancias,q ue deben ser menores de 500 residuos.
    d CLUSTALW is also available as freeware that runs on PCs and Macintosh computers from the same FTP site.
    e Profile generating programs are available by FTP from ftp.sdsc.edu/pub/sdsc/biology and are included in the Genetics Computer Group suite of programs (http://www.gcg.com/), although the most recent features of Gribskov and Veretnik (1996) are not included.