| Program |
Functions
Used In This Study |
Web Site
URL |
References |
|
|
|
|
| Clustal
X |
Multiple sequence alignment; Bootstrapping
analysis |
ftp://ftp-igbmc.u-strasbg.fr/pub/ClustalX/ |
Thompson
et al. 1997, Jeanmougin et al.
1998
|
| GeneDoc |
Editing aligned
sequences |
http://www.psc.edu/biomed/genedoc/ |
Nicholas et al.
1997 |
| GENSCAN |
Predicting
open-reading-frames |
http://genes.mit.edu/GENSCAN.html |
Burge and
Karlin 1997 |
| FGENESH |
Predicting
open-reading-frames |
http://genomic.sanger.ac.uk/ |
Solovyev V.V.
2001 |
| PAUP |
Parsimony tree
generation |
http://paup.csit.fsu.edu |
Swofford, D.L.
2002 |
| Pfam |
Conserved protein domain
search |
http://pfam.wustl.edu/ |
Bateman et al.
2002 |
| Smart |
Conserved protein domain
search |
http://smart.embl-heidelberg.de/ |
Letunic et al.
2002 |
| MEME |
Conserved protein domain
search |
http://meme.sdsc.edu/meme/website/meme.html |
Bailey et al.
1999 |
| MAST |
Conserved protein domain
search |
http://meme.sdsc.edu/meme/website/mast-intro.html |
Bailey
et al. 1999 |
| Block Maker |
Conserved protein domain
search |
http://www.blocks.fhcrc.org/blockmkr/ |
Henikoff et al.
1995 |
| TreeView |
Phylogenitic tree image
generation |
http://taxonomy.zoology.gla.ac.uk/rod/treeview.html |
Page
1996 |
| NJPlot |
Phylogenitic tree image
generation |
http://pbil.univ-lyonl.fr/software/njplot.html |
Perrière
and Gouy 1996 |
| COILS |
Predicting coiled-coil
domain |
http://www.ch.embnet.org/software/COILS_form.html |
Lupas et
al. 1991 |
| Paircoil |
Predicting coiled-coil
domain |
http://nightingale.lcs.mit.edu/cgi-bin/score |
Berger et al.
1995 |
