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.
| Tip | ||
|---|---|---|
| ||
If you haven't used the workflow samples in UGENE before, look at the "How to Use Sample Workflows" section of the documentation. |
Workflow Sample Location
The workflow sample "Search for Inverted Repeats" can be found in the "Scwnarios" section of the Workflow Designer samples.
Workflow Image
The opened workflow looks as follows:
| HTML |
|---|
<center> <br> <img src="/wiki/download/attachments/14058855/Search for Inverted Repeats.png"/> <br> </center> |
Workflow Wizard
The wizard has 3 pages.
Input sequence(s): On this page you must input sequence(s).
HTML <center> <br> <img src="/wiki/download/attachments/16122737/Search for Inverted Repeats_1.png"/> <br> </center>
- Search for inverted repeats parameters: On this page you can modify inverted repeats parameters.
HTML <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. Identity Repeats identity. Min distance Minimum distance between repeats. Max distance Maximum distance between repeats. Filter algorithm
Filter repeats algorithm.
Algorithm
Control over variations of algorithm.
Parallel threads Number of parallel threads used for the task. - Output Sequences: On this page you can modify result file(s) settings.
HTML <center> <br> <img src="/wiki/download/attachments/16122737/Search for Inverted Repeats_3.png"/> <br> </center>