Sequencher 4.8 User Manual--PC - Bioinformatics and Biological ...

A status line will indicate how many items matched out of the total number of items
available. You can dismiss the window by clicking on Done or by simply clicking on the
Project Window or performing another action.
If you want to select all the items that do not contain the specified string, go to Select All
Items That, click on All Items That command, and click the Done button. Then go to the
Select menu and choose Invert Selection.
Contain a subsequence
To select all the sequences and contigs in the Project Window that contain a specific
string of bases, you can use the Contain Subsequence command. Go to the Select
menu, click on the All Items That command and then choose the Contain Subsequence
menu item to display a dialog box (Figure 18-4).
Note: You can do a Boolean ‘and’ search using two specifiers for the subsequence. Enter
the first specifier in the Contains: field and the second in the And: field. There are also
two drop down menus to assist you in the search for specific restriction enzyme sites.
Figure 18-4 Contain subsequence… dialog box
Contain Items Named
If you want to find which contig contains a specific fragment, go to the Select menu and
choose All Items That and then Contain Items Named… to display a dialog box (Figure
18-5). This lets you select items in the Project Window that contain a fragment bearing
the specified name.
Figure 18-5 Contain Items Named… dialog box
Contain Items With Names Containing
If you are looking for several fragments with related or similar names and need to check
which contig or refrigerator they are in, go to the Select menu and choose All Items
That. Click on the submenu option Contain Items With Names Containing… to display
SEQUENCHER 4.8 User Manual for Windows © 1991 - 2007 Gene Codes Corporation, Inc. All rights reserved.
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