Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g01882.N2

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: 2440
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30


Found at i:144 original size:26 final size:26

Alignment explanation


    Indices: 115--167  Score: 72
    Period size: 26  Copynumber: 2.0  Consensus size: 26

        105 TTTACAGTTT

                                       
        115 TACCCCTAGGAGATAAATT-ACCGAAA
          1 TACCCCTAGG-GATAAATTGACCGAAA

                       *          *   
        141 TACCCCTAGGGTTAAATTGACCTAAA
          1 TACCCCTAGGGATAAATTGACCGAAA

             
        167 T
          1 T

        168 GCATGTTTGA


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  25    7  0.29
  26   17  0.71

ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25


Consensus pattern (26 bp):   
TACCCCTAGGGATAAATTGACCGAAA

Found at i:661 original size:137 final size:137

Alignment explanation


    Indices: 415--701  Score: 520
    Period size: 137  Copynumber: 2.1  Consensus size: 137

        405 GAGTAGTCTC

                                             *                               
        415 CCCAAATGGGCTTGCATATGTTTACTGATGTTGTATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

             *                                                               
        480 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
         66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC

                   
        545 ACTGTTA
        131 ACTGTTA

                                                                             
        552 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                      *                                 *    
        617 TATTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC

                   
        682 ACTGTTA
        131 ACTGTTA

              **         
        689 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

        702 AGGCCCAATA


Statistics
Matches: 144,  Mismatches: 6, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 137  144  1.00

ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
ACTGTTA
Done.