If required, you can select a subset of subsequences from the list of all subsequences in the file. Before the motif search, open the subsequence file and click in front of the name of any subsequence you want to select. A check mark appears to mark your choice. Save the subsequence file to save the selections.
- Make the required Sequence window active.
- Choose Analyze | Protein Subsequence.
- Select the Subsequence File button to choose the subsequence file that will be used for the analysis.
- A file selection dialog box is displayed, enabling you to choose the file.
- Choose the required file from the scrolling list and select Choose.
- You can restrict the search to a certain region of the sequence by typing in the base numbers that bracket the region in the Region panel, or by selecting a region from the features table drop-down menu at the right of the text boxes.
- Select your search criteria by choosing from the Search Using drop-down menu as follows:
- - choose all subsequences to use all the subsequences in the selected subsequence file
- - choose selected subsequences to use only the subsequences that you have selected in the subsequence file.
- Select OK to perform the analysis.
When the analysis is completed, the Protein Subsequence Analysis Display dialog box is displayed. You can use it to filter subsequence search results as follows:
- by the frequency of the motif occurrence
- by the residue range in which the motif occurs.
Related Topics.
Analyze Menus
Protein subsequence
