View settings in the Side Panel

When you open a single mapping, the following settings are available in the Side Panel for customizing the layout.

Beside from these preferences, all the functionalities of the alignment view are available. This means that you can e.g. add annotations (such as SNP annotations) to regions of interest.

However, some of the parameters from alignment views are set at a different default value in the view of contigs. Trace data of the sequencing reads are shown if present (can be enabled and disabled under the Nucleotide info preference group), and the Color different residues option is also enabled in order to provide a better overview of conflicts (can be changed in the Alignment info preference group).

Image packed-view
Figure 25.19: An example of the packed compactness setting.