Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_23319

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 804

Length: 1341
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28


Found at i:272 original size:42 final size:41

Alignment explanation


    Indices: 214--341  Score: 175
    Period size: 42  Copynumber: 3.0  Consensus size: 41

        204 TTCCAACAAG

                             *      *    *            
        214 AAGAACCAAACCAAGCTTGTTAAACCATCAAATGTATCCACC
          1 AAGAACCAAACCAAGCTCGTTAAATCAT-GAATGTATCCACC

                             *   *                    
        256 AAGAACCAAACCAAGCTGGTTGAATCAGTGAATGTATCCACC
          1 AAGAACCAAACCAAGCTCGTTAAATCA-TGAATGTATCCACC

                                                  *   
        298 AAGAACCAAACCAAGCTCGTTAAATCATTGAATGTATCAACC
          1 AAGAACCAAACCAAGCTCGTTAAATCA-TGAATGTATCCACC

              
        340 AA
          1 AA

        342 AACGTCGAAT


Statistics
Matches: 77,  Mismatches: 8, Indels: 2
        0.89            0.09        0.02

Matches are distributed among these distances:
  42   76  0.99
  43    1  0.01

ACGTcount: A:0.42, C:0.25, G:0.13, T:0.20


Consensus pattern (41 bp):   
AAGAACCAAACCAAGCTCGTTAAATCATGAATGTATCCACC
Done.