Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_38850

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, 336

Length: 561
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22


Found at i:353 original size:21 final size:21

Alignment explanation


    Indices: 323--376  Score: 65
    Period size: 21  Copynumber: 2.5  Consensus size: 21

        313 ACTATTGTTG

                          *        
        323 AGAAGGAAGTTGATGCT-ATAGA
          1 AGAA-GAAGTTGATACTGA-AGA

                       *         
        345 AGAAGAAGTTGTTACTGAAGA
          1 AGAAGAAGTTGATACTGAAGA

                       
        366 AGAAGAAGTTG
          1 AGAAGAAGTTG

        377 GTAAAAATAA


Statistics
Matches: 29,  Mismatches: 2, Indels: 3
        0.85            0.06        0.09

Matches are distributed among these distances:
  21   24  0.83
  22    5  0.17

ACGTcount: A:0.43, C:0.04, G:0.31, T:0.22


Consensus pattern (21 bp):   
AGAAGAAGTTGATACTGAAGA
Done.