Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_01280

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, 678

Length: 1131
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23


Found at i:312 original size:60 final size:60

Alignment explanation


    Indices: 214--374  Score: 243
    Period size: 60  Copynumber: 2.7  Consensus size: 60

        204 AGGAAAAGGG

                   *                                                    *
        214 AAGCCAGCGGGTGGCACTCATGTGAACGTTGG-GCGCAAAGGAGTTGGAGTGAACACGGGT
          1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAG-GCAAAGGAGTTGGAGTGAACACGGGA

                                      *                    *        *   
        274 AAGCCAGGGGGTGGCACTCATGTGAATGTTGGAGGCAAAGGAGTTGGGGTGAACACTGGA
          1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA

                    *        *                       
        334 AAGCCAGGAGGTGGCACCCATGTGAACGTTGGAGGCAAAGG
          1 AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGG

        375 TGGAGGAGTA


Statistics
Matches: 92,  Mismatches: 8, Indels: 2
        0.90            0.08        0.02

Matches are distributed among these distances:
  60   91  0.99
  61    1  0.01

ACGTcount: A:0.27, C:0.17, G:0.40, T:0.16


Consensus pattern (60 bp):   
AAGCCAGGGGGTGGCACTCATGTGAACGTTGGAGGCAAAGGAGTTGGAGTGAACACGGGA
Done.