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

If the Expression is a delimiter box is not checked, your regular expression must
completely define each Assembly Handle and Name Delimiter in your sequence name.
The regular expression you write will not work unless it describes the entire name of your
sequences. When you type the regular expression into the text field, it should be in the
form:
(Assembly Handle1)Name Delimiter(Assembly Handle2)
In the example in Figure 10-3 below, a regular expression is used to combine the first
two parts of the sequence name, Origin and Clone, to create a new Assembly Handle,
Origin&Clone. The Preview button displays the results of your regular expression. If
you are satisfied, click on the OK button.
Figure 10-3 Advanced Expression for Name Parsing dialog window
For more details on regular expressions, see Appendix 24 “Advanced Expression” and
the tutorials in the Tutorials folder.
Setting your Assembly Handle Names
Starting in the Project Window, click on the Assembly Parameters button. At the
bottom of the Assembly Parameters window, click on the Name Settings… button.
The Assemble by Name Settings window appears as in Figure 10-4.
You can describe up to eight Assembly Handles of which only one is active at any one
time.
For each Assembly Handle, you can use the default name Sequencher automatically
gives your contigs or you can type a descriptive title into the text box. Click on the radio
SEQUENCHER 4.8 User Manual for Windows © 1991 - 2007 Gene Codes Corporation, Inc. All rights reserved.
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