Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_01545

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, 582

Length: 971
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20


Found at i:143 original size:21 final size:22

Alignment explanation


    Indices: 100--162  Score: 71
    Period size: 21  Copynumber: 3.0  Consensus size: 22

         90 AGAGAAGGCC

                        *         
        100 AAGAAGGA-AAGGAAGAAAGAA
          1 AAGAAGGAGAAGAAAGAAAGAA

                                  
        121 AAGAAGGAGAAGAAAG--AGAA
          1 AAGAAGGAGAAGAAAGAAAGAA

                                   
        141 AA-AACGGGAGAAGAAAGAAAGA
          1 AAGAA--GGAGAAGAAAGAAAGA

        163 GATAAGTCTC


Statistics
Matches: 36,  Mismatches: 1, Indels: 8
        0.80            0.02        0.18

Matches are distributed among these distances:
  19    2  0.06
  20    6  0.17
  21   19  0.53
  22    6  0.17
  23    3  0.08

ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00


Consensus pattern (22 bp):   
AAGAAGGAGAAGAAAGAAAGAA
Done.