Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g01754.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: 1783
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28


Found at i:1024 original size:182 final size:185

Alignment explanation


    Indices: 664--1035  Score: 473
    Period size: 182  Copynumber: 2.0  Consensus size: 185

        654 AGACAAGGAA

                         *      *                  *                         
        664 GATGGAGAAGACTGTGAAGATATTATAGACTTGGAGAAACCCCATATACAGAAAAGGAAGATCAA
          1 GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAA-GAAGATCAA

                *                *               *       * *                 
        729 GAAGGGAAGAGGAAGACCAAGTTCAAAAGCTGTTGACGCTGATAATCGTCATCAATCGAAGGCAA
         65 GAAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTGATAACCATCATCAATCGAAGGCAA

            **   * *               * *                         *   *
        794 GGGAGGACAAGCAGCCTCGAGTTGGCAAATCTGCTGTCGAGAGGGAAGTATTGATT
        130 CAGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAGAGGGAAGTATCGATC

                    *                    *          *      *                 
        850 GATGGAGATGACTATGAAGACATTATAGATTTGGAGAAAATCCATATGCA-AAAA-AAGATCAAG
          1 GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAAGAAGATCAAG

                             *                                      *        
        913 AAGAGAAGAGGAAGACCGAGCTCAAAAGCTGTTGACACT-ATAACCATCATCAATCTAAGGCAAC
         66 AAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTGATAACCATCATCAATCGAAGGCAAC

                       *           *            *                   
        977 AGAGAAAAAGCGGCCTCGAGTTATAAAATCTGCTGTTGA-AGGGGAAGTATCGATC
        131 AGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAGA-GGGAAGTATCGATC

                
       1032 GATG
          1 GATG

       1036 AATCGGATGG


Statistics
Matches: 160,  Mismatches: 25, Indels: 6
        0.84            0.13        0.03

Matches are distributed among these distances:
 181    1  0.01
 182   68  0.43
 183   44  0.28
 185    4  0.03
 186   43  0.27

ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19


Consensus pattern (185 bp):   
GATGGAGAAGACTATGAAGACATTATAGACTTGGAGAAAACCCATATACAGAAAAGAAGATCAAG
AAGAGAAGAGGAAGACCAAGCTCAAAAGCTGTTGACACTGATAACCATCATCAATCGAAGGCAAC
AGAGAAAAAGCAGCCTCGAGTTAGAAAATCTGCTGTCGAGAGGGAAGTATCGATC
Done.