This article explains:

View completed alignments

To access and view completed alignments:

  1. Open the sequence file that was used for the alignment.

  2. Click the Alignment icon in the right-side toolbar.

  3. Select the saved alignment.

Add comments

To add comments, select a base, then click Add Comment from the toolbar.

View alignment regions

When in an alignment, you can view different regions by clicking and dragging the bottom summary. To zoom in, decrease the width of the viewing window.

View reading frames

Enable reading frames to view which amino acid is encoded for each frame. To enable reading frames:

  1. Click the gear icon in the top-right corner.

  2. Check Reading Frames.

To select which reading frame(s) to keep in the viewer:

  1. Click the gear icon in the top-right corner.

  2. Click the wrench icon next to Reading Frames.

  3. Select the frames to display, then click Save.

If an amino acid differs from the consensus, it is highlighted red. If it's unclear what base is present, those amino acids are highlighted yellow.

Related topics

Creating consensus and template alignments

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