MetaLogo

MetaLogo generates multiple aligned sequence logos and clusters heterogeneous sequence groups to visualize and analyze sequence conservation, variation, and motifs across evolutionary clades and functional gene families.

Key Features:

• Automatic Clustering: Performs clustering of input sequences informed by multiple sequence alignment and phylogenetic tree construction.
• Dynamic Grouping Options: Supports custom grouping criteria such as sequence length and sample ID for targeted motif and conservation analyses.
• Comprehensive Visualization: Produces multiple aligned sequence logos in a single figure that highlight homologous and nonhomologous sites across the total sequence population.
• Functional Annotation: Integrates local sequence characteristics to assist annotation of evolutionary positions and gene functions of unknown sequences.

Scientific Applications:

• Motif discovery across diverse datasets: Identification and comparison of conserved motifs within datasets from different evolutionary clades or functional gene families.
• Comparative analysis of homologous and nonhomologous sites: Visualization and analysis of site-specific conservation and variation across grouped sequences.
• Annotation inference: Support for inferring evolutionary positions and potential gene functions of uncharacterized sequences based on local sequence patterns.

Methodology:

Performs multiple sequence alignment followed by phylogenetic tree construction to inform clustering of sequences.