Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga06g02248.N1

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: 2257
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32


Found at i:38 original size:26 final size:26

Alignment explanation


    Indices: 1--103  Score: 188
    Period size: 26  Copynumber: 4.0  Consensus size: 26

                                      
          1 GGGTTAGGTAAATGTTTCATGATAAT
          1 GGGTTAGGTAAATGTTTCATGATAAT

            *               *         
         27 AGGTTAGGTAAATGTTCCATGATAAT
          1 GGGTTAGGTAAATGTTTCATGATAAT

                                      
         53 GGGTTAGGTAAATGTTTCATGATAAT
          1 GGGTTAGGTAAATGTTTCATGATAAT

                                     
         79 GGGTTAGGTAAATGTTTCATGATAA
          1 GGGTTAGGTAAATGTTTCATGATAA

        104 GAATATCATG


Statistics
Matches: 73,  Mismatches: 4, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  26   73  1.00

ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37


Consensus pattern (26 bp):   
GGGTTAGGTAAATGTTTCATGATAAT

Found at i:1218 original size:136 final size:137

Alignment explanation


    Indices: 973--1258  Score: 511
    Period size: 136  Copynumber: 2.1  Consensus size: 137

        963 GAGTAGTCTC

                                                                             
        973 CCCAAATGGGCTTGCATATGTTTACTGATGTTCCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTCCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                *          * 
       1038 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1103 ACTGTTA
        131 ACTGTTA

                                    *       *                                
       1110 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
          1 CCCAAATGGGCTTGCATATGTTTACTGATGTTCCATGTATTTTGAAATGGGCCTATGGGCCATAC

                                                                             
       1174 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
         66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC

                   
       1239 ACTGTTA
        131 ACTGTTA

              **         
       1246 CCTGAATGGGCTT
          1 CCCAAATGGGCTT

       1259 AGGCCCAATG


Statistics
Matches: 143,  Mismatches: 6, Indels: 1
        0.95            0.04        0.01

Matches are distributed among these distances:
 136  123  0.86
 137   20  0.14

ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32


Consensus pattern (137 bp):   
CCCAAATGGGCTTGCATATGTTTACTGATGTTCCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Done.