Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_05033

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, 840

Length: 1401
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21


Found at i:1056 original size:9 final size:9

Alignment explanation


    Indices: 1015--1058  Score: 61
    Period size: 9  Copynumber: 4.9  Consensus size: 9

       1005 AGAGTCAAAG

                   * 
       1015 AAGAAGGGA
          1 AAGAAGGAA

                 *   
       1024 AAGAAAGAA
          1 AAGAAGGAA

                 *   
       1033 AAGAAAGAA
          1 AAGAAGGAA

                     
       1042 AAGAAGGAA
          1 AAGAAGGAA

                    
       1051 AAGAAGGA
          1 AAGAAGGA

       1059 TGATGGAACG


Statistics
Matches: 32,  Mismatches: 3, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
   9   32  1.00

ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00


Consensus pattern (9 bp):   
AAGAAGGAA
Done.