Sequencher’s Reference Sequence is a powerful feature controlling numbering, features and much more. Use it in conjunction with the Variance Table and easily determine whether you are looking at known or unreported SNPs.
Align sequences directly from Sequencher’s project desktop using Clustal. You can even use Assemble by Name with Clustal when you have multiple samples from different sources.
Customize your workspace, control the position of your windows, and use labels to distinguish your sequences and contigs. Use motifs and highlighting to identify sequence regions. Maintain all your settings in templates so that you and your colleagues can work to the same Standard Operating Procedure.