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. |
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. |
<center> <br> <img src="/wiki/download/attachments/16122737/Search for Inverted Repeats_3.png"/> <br> </center> |