Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_10433

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: 1764
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27


Found at i:251 original size:12 final size:12

Alignment explanation


    Indices: 199--251  Score: 54
    Period size: 12  Copynumber: 4.4  Consensus size: 12

        189 GACAATTCCT

                        
        199 AAACCAGAGACC
          1 AAACCAGAGACC

                *    *  
        211 AAACAAGAGGCC
          1 AAACCAGAGACC

                *     *  
        223 AAA-GAGGAGGCC
          1 AAACCA-GAGACC

                        
        235 AAACCAGAGACC
          1 AAACCAGAGACC

                 
        247 AAACC
          1 AAACC

        252 GGAAACTGAA


Statistics
Matches: 34,  Mismatches: 5, Indels: 4
        0.79            0.12        0.09

Matches are distributed among these distances:
  11    1  0.03
  12   32  0.94
  13    1  0.03

ACGTcount: A:0.49, C:0.28, G:0.23, T:0.00


Consensus pattern (12 bp):   
AAACCAGAGACC
Done.