User GuidesSnapGene RNAAlign RNA Files

Align RNA Files

How do I align RNA sequences?

SnapGene 5.3 or later has a specific RNA file type (suffix .rna).  You can align any combination of RNA and DNA sequences. Any RNA sequences will be converted to DNA sequences when aligned.

Align RNA or a Combination of DNA and RNA Sequences

Click Tools → Align Sequences → Align Multiple DNA sequences.

Click Import Sequences to Align to add file for alignment. Alternatively, drag and drop files into the window to import them.

Set the algorithm to use for alignment, name the alignment, then click Align to perform the alignment.

Configure the view for the new alignment.

Click File → Save to save the new alignment to an appropriate location.

Align RNA or a Combination of DNA and RNA Sequences Stored in a Collection

Open the Collection and set to view "All Files". Switch to "Folder View" to see icons that identify if files are DNA or RNA sequences.

Select the sequences to align, then click Tools → Align Sequences → Align Multiple DNA sequences.

Set the alignment algorithm/s you wish to use, set a name for the alignment file. Note SnapGene will advise that RNA sequences (if present) will be converted to DNA. Click Align to perform alignment.

Configure the view for the Alignment.

Click File → Save to Collection → Collection Name to save the Alignment to save to the Collection.

Alignments will be saved to the "Miscellaneous Files" area of a Collection.