For each input sequence the workflow performs a search of inverted repeats.
Then it saves the repeats found on the direct strand to the "direct_strand_repeat_units.fa" file and the complement ones to the "compl_strand_repeat_units.fa" file.
If you haven't used the workflow samples in UGENE before, look at the "How to Use Sample Workflows" section of the documentation.
The workflow sample "Search for Inverted Repeats" can be found in the "Scwnarios" section of the Workflow Designer samples.
The opened workflow looks as follows:
<center> <br> <img src="/wiki/download/attachments/14058855/Search for Inverted Repeats.png"/> <br> </center>
The wizard has 3 pages.
Input sequence(s): On this page you must input sequence(s).
<center> <br> <img src="/wiki/download/attachments/16122737/Search for Inverted Repeats_1.png"/> <br> </center>
<center> <br> <img src="/wiki/download/attachments/16122737/Search for Inverted Repeats_2.png"/> <br> </center>
The following parameters are available:
|Annotate as||Name of the result annotations marking found repeats.|
|Min length||Minimum length of repeats.|
|Min distance||Minimum distance between repeats.|
|Max distance||Maximum distance between repeats.|
Filter repeats algorithm.
Control over variations of algorithm.
|Parallel threads||Number of parallel threads used for the task.|
<center> <br> <img src="/wiki/download/attachments/16122737/Search for Inverted Repeats_3.png"/> <br> </center>