Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00676.F7

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: 4037
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30


Found at i:3123 original size:138 final size:138

Alignment explanation


    Indices: 2749--3162  Score: 649
    Period size: 135  Copynumber: 3.0  Consensus size: 138

       2739 AAGCAACTAG

                       *         *           *                         *  *  
       2749 AGAAGAAAAACTGGAAAAGACAAGGAATTGGGCAAAGAAAGACGGAGGAGGATCTGATTCGTATG
          1 AGAAGAAAAACAGGAAAAGACGAGGAATTGGGCCAAGAAAGACGGAGGAGGATCTGATTTGTCTG

                                                                    *        
       2814 CTTCAAACTCGAGGCAGGTGAATGCTGTTAATAATAACGAAACTAATACCATTGGACATAGACAA
         66 CTTCAAACTCGAGGCAGGTGAATGCTGTTAATAATAACGAAACTAATACCATTGGAAATAGACAA

                    
       2879 TATGATCC
        131 TATGATCC

                                                                   *     *   
       2887 AGAAGAAAAACAGGAAAAGACGAGGAATTGGGCCAA-AAA-A--GATGGAGGATCCGATTTTTCT
          1 AGAAGAAAAACAGGAAAAGACGAGGAATTGGGCCAAGAAAGACGGA-GGAGGATCTGATTTGTCT

                      *                           *            * *           
       2948 GCTTCAAACTTGAGGCAGGTGAATGCTGTTAATAATAATGAAACTAATACCGTCGGAAATAGACA
         65 GCTTCAAACTCGAGGCAGGTGAATGCTGTTAATAATAACGAAACTAATACCATTGGAAATAGACA

                     
       3013 ATATGATCC
        130 ATATGATCC

                       *                                                     
       3022 AGAAGAAAAACCGGAAAAGACGAGGAATTGGGCCAAGAAAGACGGAGGAGGATCTGATTTGTCTG
          1 AGAAGAAAAACAGGAAAAGACGAGGAATTGGGCCAAGAAAGACGGAGGAGGATCTGATTTGTCTG

                                                                     *       
       3087 CTTCAAACTCGAGGCCA-GTGAATGCTGTTAATAATAACGAAACTAATACCATTGGATATAGACA
         66 CTTCAAACTCGAGG-CAGGTGAATGCTGTTAATAATAACGAAACTAATACCATTGGAAATAGACA

                     
       3151 ATATGATCC
        130 ATATGATCC

               
       3160 AGA
          1 AGA

       3163 GCCTCCCACT


Statistics
Matches: 250,  Mismatches: 20, Indels: 12
        0.89            0.07        0.04

Matches are distributed among these distances:
 134    2  0.01
 135  118  0.47
 136    4  0.02
 137    4  0.02
 138  118  0.47
 139    4  0.02

ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20


Consensus pattern (138 bp):   
AGAAGAAAAACAGGAAAAGACGAGGAATTGGGCCAAGAAAGACGGAGGAGGATCTGATTTGTCTG
CTTCAAACTCGAGGCAGGTGAATGCTGTTAATAATAACGAAACTAATACCATTGGAAATAGACAA
TATGATCC
Done.