Multiple sequence alignment (MSA Editor). The Alignment Editor is a powerful tool for visualization and editing DNA, RNA or protein multiple sequence alignments. To activate the Alignment Editor open any alignment file. For example you can use the $ugene/data/samples/CLUSTALW/COI.aln file provided with UGENE. After opening the file in UGENE the Alignment Editor window appears:
<center> <img src="/wiki/download/attachments/2883700/msa.gif"/> </center> |
The editor supports different multiple sequence alignment (MSA) formats, such as ClustalW, MSF and Stockholm. The editor provides interactive visual representation which includes:
Using the Alignment Editor you can:
Example 2: Build a tree from your alignment. You can do this by three different ways:
a. From the toolbar. Click to the tree icon:
<center> <img src="/wiki/download/attachments/2883700/tree_toolbar.gif"/> </center> |
b. From the context menu:
<center> <img src="/wiki/download/attachments/2883700/tree_context.gif"/> </center> |
c. From the Options Panel:
<center> <img src="/wiki/download/attachments/2883700/tree_options.gif"/> </center> |
After calculation the tree appears in the MSA Editor in a separate window:
<center> <img src="/wiki/download/attachments/2883700/tree_result.gif"/> </center> |