vector excision question

Don Atkinson atkinson at BELHAVEN.MED.UTAH.EDU
Tue Apr 25 23:34:27 EST 1995

Hi, I've got a couple of questions.

I could easily be missing something obvious but......

I am sequencing m13 clones, many of which have inserts small enough the 
I am reading right through back into the m13.  I also have the cloning 
vector to screen out.  When I use pregap it gets rid of the m13 sequence 
at the beginning of the read and also finds the cloning vector but that 
leaves the m13 sequence after the insert.  I need these short sequences 
in the database so what is the best way to handle this situation?

I've got a question about the contig editor in xgap.  I can't see the 
last 15 or so base pairs of a contig.  The scrollbar slides right off 
the "edge" of the window which is as large as the screen will allow.  
Also the height of the window varies with the number of reads in the 
contig, if the are more than three or so the consensus dissapears off 
the bottom of the window.  I can adjust that manually but I think the 
problem it that some setting, somewhere isn't right.  The machine is a 
DEC Alpha 400 running OSF/1 v3.0

Thanks for the help

At least I'm not selling anything ;-)

Donald Atkinson                                atkinson at belhaven.med.utah.edu
Research Specialist                            phone   (801) 581-8909
Howard Hughes Medical Institute                fax     (801) 585-3501
Suite 5100
Eccles Institute of Human Genetics
University of Utah                             Will clone for food.
10 N. 2030 East Street
Salt Lake City, Utah 84112 USA

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