Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01569.F1

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: 1965
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25


Found at i:583 original size:69 final size:69

Alignment explanation


    Indices: 404--688  Score: 239
    Period size: 69  Copynumber: 4.1  Consensus size: 69

        394 ATGAACAAGG

                    *      *      **         *          *           * **     
        404 AGGTGATATTGAGCACAAGGGTCGGGAAGAATCACA-TGTTGAAACCGGAGGAAAGACCAATGGT
          1 AGGTGATAATGAGCAAAAGGGTAAGGAAGAATCGCAGT-TTGAAGCCGGAGGAAAGGCGGATGGT

               * 
        468 GGAGA
         65 GGAAA

                       *        *    *       *  *     *                      
        473 AGGTGATAATGTGCAAAAGGCTAAGCAAGAATCACATTTTGATGCCGGAGGAAAGGCGGATGGTG
          1 AGGTGATAATGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG

                
        538 GAAA
         66 GAAA

                           *           *    *  *           **     * *   *** *
        542 AGGTGATAATGAGCACAAGGGTAAGGACGAATTGCGGTTTGAAGCCGCTGGAAAAGTGGACAATA
          1 AGGTGATAATGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG

            *   
        607 CAAA
         66 GAAA

                     *   *                                *     *    *       
        611 AGGTGATAACGAGTAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCAGAGGACAGGCAGATGGTG
          1 AGGTGATAATGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG

                
        676 GAAA
         66 GAAA

               *     
        680 AGGCGATAA
          1 AGGTGATAA

        689 GGAGGGTCAG


Statistics
Matches: 164,  Mismatches: 51, Indels: 2
        0.76            0.24        0.01

Matches are distributed among these distances:
  69  163  0.99
  70    1  0.01

ACGTcount: A:0.38, C:0.12, G:0.34, T:0.16


Consensus pattern (69 bp):   
AGGTGATAATGAGCAAAAGGGTAAGGAAGAATCGCAGTTTGAAGCCGGAGGAAAGGCGGATGGTG
GAAA
Done.