SSRit working properly?

[Rajkumar]

HI,

How would you expect the SSRit to pick up 4 repeats, when you set the
number of repeats as 5? Set the parameter always low (repeat>di;
number>1). Then SSRit will pick your repeat

bye

rajkumar

----- Original message -----
From: "Steve Hamann" <shamann at grl1.grl.ars.usda.gov>
To: gramene at gramene.org
Date: Mon, 16 Jun 2003 13:33:25 -0500
Subject: SSRit working properly?

  Genevieve DeClerck 

I have a question on the SSRit program.  This sequence below has a cgt
(4) repeat.  However I cannot get the SSRit program to identify the
sequence.  

I have the parameters set at (tetramer) and (5) for the number of
repeats.  Shouldn't this identify this sequence?
> GCGCACTACCCGGCGCTCGCGCGGCTTTCTTTCCCAACTCCGACGAAGGCTAGCTACACC 
  ACCTGGTGCGGGCTCGTCTCCATCGCCCGCCACCCGCTCCGTCGTCGTCGTCCCCGCCGC
  GCCGATCCCGAATCGAATGGGGAGCCTGGCGTCCGAGAGGAAGGTGGTCGGGTGGGCCGC
  CAGGGACGCCACCGGACACCTCTCCCCCTACTCCTACACCCTCAGGAACACAGGCCCTGA
  AGATGTGGTGGTGAAGGTGCTCTACTGCGGGATCTGCCACACGGACATCCACCAGGCCAA
  GAACCACCTCGGGGCTTCAAAGTATCCTATGGTCCCTGGGCACGAGGTGGTCGGCGAGTG
  GTGGAGTCGGGCCCGAGTGGCCAAGTACGGCGTCGGCGACGTGGTAAGCGTCGGGGTGAT
  CGTTGGGTGCTGCCGCGAGTGThanks for any help you can provide on this.Bryan
  KindigerUSDA-ARSGrazinglands Research LaboratoryEl REno, OK  73036

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