Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g00488.F3

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: 2778
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28


Found at i:2011 original size:117 final size:111

Alignment explanation


    Indices: 1597--2058  Score: 629
    Period size: 111  Copynumber: 4.1  Consensus size: 111

       1587 TCAAATTCAG

                                                  *                          
       1597 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCTAACATGGGATCACCTCGATATGAGCA
          1 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA

                    *      * **    *                    * 
       1662 GTCATATGTTCAAGGGATGGGTCATGCCTGGAATGGCCAGATGGCT
         66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT

                                                *                            
       1708 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTACCAAACATGGGATCACCTCGATATGAGCA
          1 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA

            *  *           *                              
       1773 TTCGTATGCTCAAGGGACAGGTCCTGCCTGGAATGGCCAGATGGTT
         66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT

                                  *   *           *                          
       1819 CAGCAGCAGCAGAATTTTCATGTGAACGGAACTGTATCGAACATGGGATCACCTCGATATGAGCA
          1 CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA

             *                                  *   *     
       1884 GACATATGCTCAAGGCACAGGTCCTGCCTGGAATGGTCAGCTGGTT
         66 GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT

                       *            *             *               *  *       
       1930 CAGCAGCATCATCAGAATAACTTTTATG-GAAATGGAAGTGTATCAAACATGGGCTCGCCTCGAT
          1 CAGCAG---CAGCAGAAT---TTTCATGCG-AATGGAACTGTATCAAACATGGGATCACCTCGAT

                        *                                  *     
       1994 ATGAGCAGTCATGTGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGCTGGTT
         59 ATGAGCAGTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT

             *          
       2047 CGGCAGCAGCAG
          1 CAGCAGCAGCAG

       2059 GCCCACTTAC


Statistics
Matches: 313,  Mismatches: 31, Indels: 11
        0.88            0.09        0.03

Matches are distributed among these distances:
 111  209  0.67
 114   13  0.04
 116    1  0.00
 117   90  0.29

ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23


Consensus pattern (111 bp):   
CAGCAGCAGCAGAATTTTCATGCGAATGGAACTGTATCAAACATGGGATCACCTCGATATGAGCA
GTCATATGCTCAAGGCACAGGTCCTGCCTGGAATGGCCAGATGGTT
Done.