Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_25823

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: 2300
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22


Found at i:195 original size:98 final size:99

Alignment explanation


    Indices: 22--228  Score: 353
    Period size: 98  Copynumber: 2.1  Consensus size: 99

         12 GCCTCCCAGG

                    *              *                                         
         22 AACCCTAAACCCTCGACCGAACAGGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
          1 AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA

                                              
         87 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
         66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA

                                  *                  **          *           
        121 AACCCTAACCCCTCGACCGAACCCGAGTCGATAG-CCAAGAGGAATCCGAACCGATAACAGCCAA
          1 AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA

                                              
        185 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
         66 AACCACGATGGGTCCTCCGCCACCTCTTCCCATA

                      
        219 AACCCTAACC
          1 AACCCTAACC

        229 TGCAAAATCC


Statistics
Matches: 102,  Mismatches: 6, Indels: 1
        0.94            0.06        0.01

Matches are distributed among these distances:
  98   71  0.70
  99   31  0.30

ACGTcount: A:0.32, C:0.39, G:0.15, T:0.13


Consensus pattern (99 bp):   
AACCCTAACCCCTCGACCGAACACGAGTCGATAGCCCAAGAACAATCCGAACCCATAACAGCCAA
AACCACGATGGGTCCTCCGCCACCTCTTCCCATA
Done.