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Day 1
 

 

Alanine Valine Phenylanine Proline Methionine Isoleucine Leucine
Hydrophobic amino acids

Asparate Glutamate Lysine Arginine
Charged amino acids

Serine Threonine Tyrosine Histidine Cysteine Asparagine Glutamine Tryptophan Polar amino acids

 

START PAGE SOFTWARE

Software

This is the list of free software recommended for the course.

Program Name Description Link
ClustalX Multiple sequence alignment program with user friendly interface http://www.clustal.org/  or web portal for Multiple Sequence Alignment
GeneDOC A Full Featured Multiple Sequence Alignment Editor, Analyser and Shading Utility for Windows.

GeneDoc 2.7.0 compatible with Windows 7

Download the program from here:

gd322700.zip

 

PAUP* (commercial) The best available phylogenetic tree-building software is PAUP*4.b10 (Phylogenetic Analysis Using Parsimony, Swofford, 2000). This program performs advanced phylogenetic analysis using almost all methods and criteria. http://paup.sc.fsu.edu/
MEGA The goal of the MEGA (Molecular Evolutionary Genetics Analysis) software project is to make useful methods of comparative sequence analysis easily accessible to the scientific community for research and education. http://www.megasoftware.net
TreeView TreeView is a simple program for displaying phylogenies on Apple Macintosh and Windows PCs. http://taxonomy.zoology.gla.ac.uk/rod/treeview.html
Figtree FigTree is designed as a graphical viewer of phylogenetic trees and as a program for producing publication-ready figures. http://tree.bio.ed.ac.uk/software/figtree/
Dendroscope Software for visualizing phylogenetic trees and rooted networks. http://dendroscope.org/
Jmol An open-source Java viewer for chemical structures in 3D. http://jmol.sourceforge.net/