Alignment on the basis of predicted 2ndary structure?

Francois Jeanmougin pingouin at crystal.u-strasbg.fr
Wed Dec 11 03:04:58 EST 1996

In article <32AD9FB3.5F9E at becker.biosci.arizona.edu>,
	John Calley <jnc at becker.biosci.arizona.edu> writes:
> Ideally I'd like to have a program take both
>secondary structure and primary structure into consideration in doing an
>alignment but I'd settle for just secondary structure. Does anyone
>have any suggesions?

	ClustalW can do that (Profile and structure alignments). See :

or 	http://www.u.arizona.edu/~schluter/ClustalW/index.html (the mirror
should be faster for you).

							hope this helps,
Francois Jeanmougin
Service de bioinformatique / bioinformatics service
IGBMC BP 163 67404 Illkirch France
tel :(France) 03 88 65 32 71 / (international) (+33) 3 88 65 32 71
e-mail : jeanmougin at igbmc.u-strasbg.fr
"C'est pas parcequ'on monte au banc, qu'il faut descendre a jeun." (Thiefaine)

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