SeaView

SeaView performs multiple sequence alignment and constructs phylogenetic trees to support evolutionary and comparative genomic analyses.

Key Features:

• Multiple Sequence Alignment: Support for alignment using arbitrary algorithms selectable within the program.
• Phylogenetic Tree Building: Integration with PhyML to perform maximum-likelihood phylogenetic inference.
• Network Access: Direct access to sequence databases for retrieval of external sequence data.
• Tree Display and Manipulation: Options to display, root or unroot, represent trees as binary or multifurcating, and to print or copy trees to the clipboard.

Scientific Applications:

• Phylogenetic inference: Construction and analysis of maximum-likelihood trees from aligned sequence data using PhyML.
• Evolutionary and comparative genomics: Comparative analysis of sequence relationships to infer evolutionary histories and genomic divergence.
• Sequence dataset integration: Incorporation of sequences retrieved from external databases into alignment and phylogenetic analyses.

Methodology:

Alignment is performed using arbitrary alignment algorithms; phylogenetic reconstruction uses PhyML for maximum-likelihood analysis; sequence retrieval from external databases is supported.