Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01237.F2

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: 4438
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Found at i:3032 original size:17 final size:18

Alignment explanation


    Indices: 2989--3034  Score: 65
    Period size: 18  Copynumber: 2.6  Consensus size: 18

       2979 TCGTTTTTGT

                *            *
       2989 TCTGATTTTGATAATTTC
          1 TCTGTTTTTGATAATTTA

                              
       3007 TCTGTTTTTGATAATTTA
          1 TCTGTTTTTGATAATTTA

             *        
       3025 TTTGTTTTTG
          1 TCTGTTTTTG

       3035 TGATCGTTGC


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   25  1.00

ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63


Consensus pattern (18 bp):   
TCTGTTTTTGATAATTTA

Found at i:3904 original size:43 final size:43

Alignment explanation


    Indices: 3744--3906  Score: 125
    Period size: 43  Copynumber: 3.8  Consensus size: 43

       3734 ATAGGATTTC

                  *     * *                  * *    *  
       3744 CAATATGTGATTTCGTGTAAGACCACGTCTGGGGCGTTGGCAT
          1 CAATATTTGATTACATGTAAGACCACGTCTGGGACATTGGAAT

            *       *         *        *     *           
       3787 TAAT-TTGAGATTTACATATAAGACCATGTCTGAGACATTGGAAT
          1 CAATATT-TGA-TTACATGTAAGACCACGTCTGGGACATTGGAAT

              *         * *            *         *   *  
       3831 C-GTATTTGATTTCGTGTAAGACC-CTATCTGGGACAATGGTAT
          1 CAATATTTGATTACATGTAAGACCAC-GTCTGGGACATTGGAAT

                                              
       3873 CAATATTTGATTACATGTAAGACCACGTCTGGGA
          1 CAATATTTGATTACATGTAAGACCACGTCTGGGA

       3907 TGTTGGCATT


Statistics
Matches: 88,  Mismatches: 26, Indels: 12
        0.70            0.21        0.10

Matches are distributed among these distances:
  42   26  0.30
  43   34  0.39
  44   28  0.32

ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33


Consensus pattern (43 bp):   
CAATATTTGATTACATGTAAGACCACGTCTGGGACATTGGAAT
Done.