Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03833.F1

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, 671

Length: 1119
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26


Found at i:679 original size:228 final size:228

Alignment explanation


    Indices: 7--847  Score: 1056
    Period size: 228  Copynumber: 3.7  Consensus size: 228

          1 GGTGGG

                       *  *        *  *              **             *  *  *  
          7 ATGCAGATATTTGTAAAAACCCTCACCGGAAAAACCATCACTTTGGAGGTGGAGAGTTCTGATAC
          1 ATGCAGATATTCGTGAAAACCCTGACTGGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACAC

                  *        *                                   *             
         72 CATTGATAATGTTAAGGCGAAGATTCAGGACAAGGAGGGTATTCCACCAGATCAGCAGAGGTTGA
         66 CATTGACAATGTTAAAGCGAAGATTCAGGACAAGGAGGGTATTCCACCAGACCAGCAGAGGTTGA

                                                                             
        137 TTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCA
        131 TTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCA

                          *     *  *  *  *   
        202 ACCCTGCACTTGGTGCTGCGACTGCGTGGTGGA
        196 ACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGA

                    *  *        **             *  *   *                *     
        235 ATGCAGATTTTTGTGAAAACTTTGACTGGAAAAACTATTACATTGGAGGTGGAGAGCTCAGACAC
          1 ATGCAGATATTCGTGAAAACCCTGACTGGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACAC

            *     *  *   *     *     *  *                    *               
        300 AATTGATAACG-TGAAGACCAAGATCCAAGACAAGGAGGGTA-TCCACCTGACCAGCAGAGGTTG
         66 CATTGACAATGTTAAAG-CGAAGATTCAGGACAAGGAGGGTATTCCACCAGACCAGCAGAGGTTG

                    *        *                 *                             
        363 ATTTTTGCTGGAAAGCAACTCGAGGATGGGAGGACTCTTGCGGATTATAACATCCAAAAGGAGTC
        130 ATTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTC

                                             *
        428 AACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGG
        195 AACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGA

                          *  *           *      * *           *              
        462 ATGCAGATATTCGTTAAGACCCTGACTGGTAAAACCGTAACACTGGAGGTCGAGAGCTCGGACAC
          1 ATGCAGATATTCGTGAAAACCCTGACTGGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACAC

                                                   *     *                   
        527 CATTGACAATGTTAAAGCGAAGATTCAGGACAAGGAGGGAATTCCTCCAGACCAGCAGAGGTTGA
         66 CATTGACAATGTTAAAGCGAAGATTCAGGACAAGGAGGGTATTCCACCAGACCAGCAGAGGTTGA

                               *                       *                 *  *
        592 TTTTTGCCGGAAAGCAGCTTGAGGATGGGAGGACGCTTGCGGACTATAACATCCAAAAGGAATCC
        131 TTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCA

                    *      *        *        
        657 ACCCTGCATTTGGTTTTGCGCCTTAGAGGAGGA
        196 ACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGA

                             *   *       *           *                       
        690 ATGCAGATATTCGTGAAGACCTTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACAC
          1 ATGCAGATATTCGTGAAAACCCTGACTGGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACAC

            *           *   * *                    *     *  *                
        755 GATTGACAATGTGAAATCTAAGATTCAGGACAAGGAGGGGATTCCTCCGGACCAGCAGAGGTTGA
         66 CATTGACAATGTTAAAGCGAAGATTCAGGACAAGGAGGGTATTCCACCAGACCAGCAGAGGTTGA

             *     *         * *        
        820 TCTTTGCTGGAAAGCAGTTGGAGGATGG
        131 TTTTTGCCGGAAAGCAGCTCGAGGATGG

        848 TCGAACTTTA


Statistics
Matches: 529,  Mismatches: 81, Indels: 6
        0.86            0.13        0.01

Matches are distributed among these distances:
 227  193  0.36
 228  336  0.64

ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22


Consensus pattern (228 bp):   
ATGCAGATATTCGTGAAAACCCTGACTGGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACAC
CATTGACAATGTTAAAGCGAAGATTCAGGACAAGGAGGGTATTCCACCAGACCAGCAGAGGTTGA
TTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCA
ACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGA

Done.