Genotyping: Help with calling tetranucleotide repeat peaks

Alison Brown alison.brown at channing.harvard.edu
Fri Mar 15 10:31:30 EST 2002


I'm having problems calling several of the allele peaks of a
tetranucleotide repeat.  I have pasted a picture of several examples of
it onto a web site in the hope that someone can help me with it.  Sorry
about the quality of the picture - it was the best I could do.
 http://dnaseq.bwh.harvard.edu/problem-tetra.html

The allele in question is 162 - if you can't read the labels that's the
second peak of the first lane.

Lane 1 - looks good to me for both alleles ( peak sizes 150.08 and 162.00)
Lane 2 - 2nd peak looks good at 166.93, but what should the peak at
163.88 be called as?
Lane 3 - Main peak is at 161.98 and 2nd at 162.97
Lane 4 -  Peak is at 162.91

So is this +A addition?  Does this happen to tetra's, I thought it
happened only to dinucleotide repeats.  Reverse primer has 7 base tail
to force +A addition.

Any help is great!
Thanks,
Alison

-- 
Alison Brown
Laboratory Manager and Technical Director
Harvard Partners Center for Genetics and Genomics
High Throughput Genotyping Facility
Brigham and Women's Hospital
221 Longwood Avenue, LM114
Boston, MA 02115.

Lab Tel: 617 732 5949
Office Tel: 617 732 5561
Fax: 617 264 5135


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