Online programs

Homologous Sequences Search

• Blast

Multiple Alignment

• MUSCLE
• T-Coffee
• ClustalW
• ProbCons

Phylogeny

• PhyML
• TNT
• BioNJ
• MrBayes

Tree Viewers

• TreeDyn
• Drawgram
• Drawtree
• ATV

Alignment Refinement

• Gblocks
• Jalview (hand editing)

Format Conversion

• Readseq
• Format converter