Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_36405

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, 1000

Length: 1758
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21


Found at i:208 original size:16 final size:17

Alignment explanation


    Indices: 163--208  Score: 51
    Period size: 16  Copynumber: 2.7  Consensus size: 17

        153 AGAGCGAAAA

                              
        163 AGAGAGAAAAGAAAGAGG
          1 AGAGA-AAAAGAAAGAGG

                  *           
        181 A-AGGAGAAAGAAAG-GG
          1 AGA-GAAAAAGAAAGAGG

                        
        197 AGAGAAAAAGAA
          1 AGAGAAAAAGAA

        209 GGAAATCCCG


Statistics
Matches: 24,  Mismatches: 2, Indels: 6
        0.75            0.06        0.19

Matches are distributed among these distances:
  16   11  0.46
  17   10  0.42
  18    3  0.12

ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00


Consensus pattern (17 bp):   
AGAGAAAAAGAAAGAGG
Done.