About the Multiple Sequence Alignment Viewer

The NCBI Multiple Sequence Alignment Viewer (MSA) is a graphical display for multiple alignments of nucleotide and protein sequences.

To start using Multiple Sequence Alignment viewer go to the Multiple Sequence Alignment Viewer application page.

The application landing page contains links to examples and demo pages that you can study before aligning data on your own.

We also recommend going through the Guide.

Contact us using the feedback link at the top right of the Multiple Sequence Alignment Viewer page. We really appreciate your feedback.

Table of Contents

• Multiple Sequence Alignment Viewer application
• Documentation home
• General
  • About
  • MSA Viewer Embedding API
  • Release Notes
• Help
  • Guide to Using the MSA Viewer
  • Video Tutorials
  • Legend
• Demo Pages
  • Static embedding
  • Dynamic embedding
  • Sorting parameters embedding
  • Consensus parameters embedding
  • Event Handling
  • Coloring
  • Customizing Columns
  • Alignment Coordinate Transformation
• Related Resources
  • Sequence Viewer
  • Tree Viewer