Sequencher 4.8 User Manual--PC - Bioinformatics and Biological ...

The Translated Variance Table
If you are interested in focusing on the differences between sequences or contigs at the
amino acid level you should use the Translated Variance Table. This table differs from the
Variance Table by displaying both codons and their associated amino acid residues. Each
row in the Translated Variance Table summarizes the variations among all of the selected
sequence translations at a given amino acid position relative to the exemplar.
You can also create a Translated Variance Table that summarizes the differences between
the translations of selected contig consensus sequences in your project and the translation
of a common Reference Sequence (Translated consensus Variance Table). When you
are working with multiple samples from multiple sources, and have used Assemble by
Name with a Reference Sequence, you should use this form of the Translated Variance
Table.
Figure 13-1 Variance Table Menu Commands
The Structure of the Variance Table
Each row in a Variance Table summarizes the variation among all of the selected
sequences at a given base position relative to the exemplar (see Figure 13-2). The
exemplar can be a Reference Sequence, a consensus sequence, or any other sequence
you choose. In the consensus Variance Table the exemplar is limited to the Reference
Sequence.
SEQUENCHER 4.8 User Manual for Windows © 1991 - 2007 Gene Codes Corporation, Inc. All rights reserved.
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