Searching the base sequence pattern from the intergenic region.
Operation
- Search only the intergenic region with the nucleotide sequence pattern.
- Select the genomic sequence that is loaded into the current main directory.
- It is also possible to select more than one genomes.
- The genome sequences highlighted in blue and red is selected.
- Among them, the genome sequence highlighted in red is displayed in the main current feature map.
- Click "Search -> Pattern Search" from the menu.
- The "Pattern Search" dialog will be displayed.
- Check the registered pattern (multiple selection possible).
- If a sequence pattern is not registered, you can also paste a sequence pattern from the clipboard into the "Pattern" text area.
- Turn on "Intergenic Region" of "Range" radio button.
- Click "Run".
- The pattern search is started.
- A progress message is displayed during the search.
- When the search is completed, the "Pattern Match Sites" dialog will be displayed.
- In the upper pane, the list of genome sequences to be searched is displayed.
- When multiple genome sequences are searched at the same time, a list of those genomic sequences and the number of patterns searched are displayed.
- Click on one of the search genomes in the upper pane.
- The main feature map will replace the feature map of the selected genome.
- The left pane displays the number of matched patterns for each pattern found in the selected genomic sequence.
- Check the pattern check box in the left pane (multiple selections possible).
- All pattern positions found in the list in the right pane are displayed.
- Clicking on one row in the right pane moves the feature map to that position and also displays the matched base sequence in color.