Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g01553.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, 607

Length: 1012
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26


Found at i:452 original size:228 final size:227

Alignment explanation


    Indices: 48--710  Score: 776
    Period size: 228  Copynumber: 2.9  Consensus size: 227

         38 CTTTGAAGAA

                           *                       *  *                      
         48 GATGCAGATCTTTGTGAAAACCCTTACCGGCAAGACCATAACACTCGAGGTCGAAAGCTCCGACA
          1 GATGCAGATCTTTGTCAAAA-CCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA

                         *           *              *        *               
        113 CCATCGACAACGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCCGACCAGCAGCGTCTC
         65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC

              *              ** *     *  **                                  
        178 ATTTTCGCTGGCAAACAGCTCGAAGACGGTCGGACCCTT-GCTGATTATAACATCCAGAAAGAAT
        130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGA-CCTTGGCTGATTATAACATCCAGAAAGAAT

                   *                           
        242 CCACCCTCCACCTCGTCTT-ACGCCTTCGTGG-GG
        194 CCACCCTTCACCTCGTCTTGA-GCCTTCGTGGAGG

                   *                                         *     *  *      
        275 GCATGCAAATCTTTGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGTTCCGAC
          1 G-ATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGAC

                                                                    *      * 
        340 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAACAGCGTTT
         64 ACCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCT

            *                                                  *             
        405 GATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAATATCCA-AAAGGAA
        129 CATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAA-GAA

                          *  *     *           
        469 TCCACCCTTCACCTTGTTTTGAGGCTTCGTGGAGG
        193 TCCACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG

                     *        *  *     *     *  *      * *     *           * 
        504 GATGCAGATTTTTGTCAAGACTTTGACAGGCAAAACAATCACCTTGGAGGTTGAAAGCTCCGATA
          1 GATGCAGATCTTTGTCAAAACCTT-ACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACA

                *     *        *        *  *                    *     ** *   
        569 CCATTGACAATGTTAAGGCAAAGATTCAGGATAAGGAAGGAATCCCACCTGATCAGCAAAGGCTC
         65 CCATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTC

                 *  *                          *                 *        *  
        634 ATCTTTGCCGGCAAACAATTGGAAGATGGGAGGACTTTGGCTGATTATAACATTCAGAAAGAGTC
        130 ATCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATC

            *           
        699 TACCCTTCACCT
        195 CACCCTTCACCT

        711 TGTTCTTCGT


Statistics
Matches: 369,  Mismatches: 60, Indels: 13
        0.83            0.14        0.03

Matches are distributed among these distances:
 227   12  0.03
 228  350  0.95
 229    7  0.02

ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21


Consensus pattern (227 bp):   
GATGCAGATCTTTGTCAAAACCTTACCGGCAAGACCATCACCCTCGAGGTCGAAAGCTCCGACAC
CATCGACAACGTTAAGGCCAAGATTCAAGACAAGGAAGGAATCCCACCTGACCAGCAGCGTCTCA
TCTTCGCTGGCAAACAATTGGAAGATGGGAGGACCTTGGCTGATTATAACATCCAGAAAGAATCC
ACCCTTCACCTCGTCTTGAGCCTTCGTGGAGG

Done.