Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold1507

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, 976

Length: 1627
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33


Found at i:435 original size:27 final size:28

Alignment explanation


    Indices: 416--525  Score: 104
    Period size: 27  Copynumber: 4.0  Consensus size: 28

        406 GGTATTTTGT

                                         
        416 TCATTTTATCCC-ATG-GGGGTAATTCGG
          1 TCATTTTA-CCCTATGAGGGGTAATTCGG

                                      * 
        443 TCATTTTACCCTATGAGGGGTAATTCAG
          1 TCATTTTACCCTATGAGGGGTAATTCGG

                     *   *            *  
        471 -CTATTTTAGCCTGT-AGGGGTAATTTGG
          1 TC-ATTTTACCCTATGAGGGGTAATTCGG

             *          *      *        
        498 TTATTTTACCCTGTG-GGGATAATTCGG
          1 TCATTTTACCCTATGAGGGGTAATTCGG

             
        525 T
          1 T

        526 TATCGAAGCA


Statistics
Matches: 69,  Mismatches: 9, Indels: 10
        0.78            0.10        0.11

Matches are distributed among these distances:
  26    3  0.04
  27   45  0.65
  28   21  0.30

ACGTcount: A:0.20, C:0.15, G:0.25, T:0.39


Consensus pattern (28 bp):   
TCATTTTACCCTATGAGGGGTAATTCGG

Found at i:526 original size:27 final size:27

Alignment explanation


    Indices: 429--528  Score: 119
    Period size: 27  Copynumber: 3.7  Consensus size: 27

        419 TTTTATCCCA

                           *          *
        429 TGGGGGTAATTCGGTCATTTTACCCTA
          1 TGGGGGTAATTCGGTTATTTTACCCTG

                         * *       *    
        456 TGAGGGGTAATTCAGCTATTTTAGCCTG
          1 TG-GGGGTAATTCGGTTATTTTACCCTG

             *         *               
        484 TAGGGGTAATTTGGTTATTTTACCCTG
          1 TGGGGGTAATTCGGTTATTTTACCCTG

                 *            
        511 TGGGGATAATTCGGTTAT
          1 TGGGGGTAATTCGGTTAT

        529 CGAAGCATCG


Statistics
Matches: 59,  Mismatches: 13, Indels: 2
        0.80            0.18        0.03

Matches are distributed among these distances:
  27   38  0.64
  28   21  0.36

ACGTcount: A:0.20, C:0.13, G:0.28, T:0.39


Consensus pattern (27 bp):   
TGGGGGTAATTCGGTTATTTTACCCTG
Done.