Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00129.C3

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: 2209
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32


Found at i:1267 original size:130 final size:128

Alignment explanation


    Indices: 1009--1418  Score: 413
    Period size: 130  Copynumber: 3.2  Consensus size: 128

        999 TTGCCACTAA

                   *              *                *         *               
       1009 CAAGAGTGAAGATTGAATCTTCAAGCTGTTTAACCTTTGATTTT-TATTTTCAGAAAAG-AAAAG
          1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAGAAAAAG

               *                                *             *              
       1072 --AGAAGGCCTGCTTGGTCCCTTTACCTAAGAAAATGCTCTTCCTGATTGGTATTCAATCACCAG
         66 AAAAAAGGCCTGCTTGGTCCC--TACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCAG

                                                                             
       1135 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAAGAAAGA
          1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAG-AAAAGAAA-A

                                      *        *       *             *       
       1200 AGAAAAAAGGCCTGCTTGGTGCCC-ATCTAAGAAATTACTCTTGCTGATTGATATTCGATCACCA
         64 AGAAAAAAGGCCTGCTTGGT-CCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCA

             
       1264 G
        128 G

                *                *                     * *   *              *
       1265 CAAGGGTAAAGATTGAATCTTTGAGCTGTTTAACCTTTGC-TTAGAATTCTCAGGAAAAGAAAAG
          1 CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCA-GAAAAGAAAAA

                                    * *           *   ***       * **    *   *
       1329 GAAAAAAGGCCAT-CTTGTTGTCCGTGCCT-AGAAAATGCTCCAGCTGATTGGTGGTCAACCACT
         65 GAAAAAAGGCC-TGCTTG--GTCCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACC

              
       1392 AG
        127 AG

                  *   *              
       1394 CAAGAGCAAACATTGAATCTTCGAG
          1 CAAGAGTAAAGATTGAATCTTCGAG

       1419 TAACAAAATT


Statistics
Matches: 238,  Mismatches: 34, Indels: 21
        0.81            0.12        0.07

Matches are distributed among these distances:
 126   41  0.17
 127    8  0.03
 128   21  0.09
 129   69  0.29
 130   81  0.34
 132   15  0.06
 133    3  0.01

ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29


Consensus pattern (128 bp):   
CAAGAGTAAAGATTGAATCTTCGAGCTGTTTAACCTTTGCTTTTGTATTATCAGAAAAGAAAAAG
AAAAAAGGCCTGCTTGGTCCCTACCTAAGAAAATACTCTTCCTGATTGATATTCAATCACCAG

Done.