Alignment

Visualizes the sequence alignment of your antibodies using standard numbering schemes.

This tool is useful for evaluating differences between sequences and for generating IP claims around functional positions.

Accessing the Tool

Select at least one antibody in the Project View. Go to the Analysis menu and select Alignment. This will open the Alignment workspace in a new tab.

Variable Region

Constant Region

Using the Tool

• Grouping: Sequences are grouped by chain type (Kappa, Lambda, Heavy).
• Settings
  • Domains: The Leader, Variable, and Constant regions may be displayed.
  • Numbering and Regions: The numbering and region scheme may be changed by selecting different schemes from their respective selection boxes.
    • Leader sequences are numbered negatively from the start of the variable domain.
    • Constant domains are numbered based on an alignment of the germline sequences for that region.
  • Color Residues: The residues may be colored or not based on ABHAND.
  • Consensus: A consensus sequence may be displayed at the top of each group.
  • Fade Consensus: Toggle this option to gray out residues that match the consensus, highlighting mutations and unique features.
• Linear Sequence: Click the icon next to the entry name to toggle the linear number display above a sequence.
• Export
  • Export Numbering Sheet: Exports the sequences with all numbering and region depictions.
  • Export Alignment Excel: Exports the alignment in an Excel file.

Excel Export

Numbering Sheet

Numbering Sheet Set

Numbering Sheet Entry