Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00763.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, 808

Length: 1348
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24


Found at i:457 original size:228 final size:228

Alignment explanation


    Indices: 60--952  Score: 1338
    Period size: 228  Copynumber: 3.9  Consensus size: 228

         50 CTCTCAAAAG

                                                            *  *     *       
         60 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
          1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACA

                                                                             
        124 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
         65 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC

                                   *                             *           
        189 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAATC
        130 ATCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATC

                                              
        254 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
        195 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT

                                                                       *     
        288 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC

                        *           *                                        
        353 CATCGATAATGTGAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                      *              *                                       
        418 TCTTCGCCGGAAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
        131 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC

                             *               
        483 ACCCTCCACCTTGTCCTACGTCTTCGTGGGGGT
        196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT

                                                                             
        516 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC

                                                                             
        581 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                                                          *  *               
        646 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATCC
        131 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC

                       *              *     *
        711 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGC
        196 ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT

                          *        *  *               * *  *  *     *  *     
        744 ATGCAGATCTTCGTGAAAACCTTGACTGGCAAGACCATCACCTTAGAGGTGGAGAGTTCGGACAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC

                  *         * *  *                 *              *  *   * * 
        809 CATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                *  *  *  *     *  *  *  ** *        *     *                 *
        874 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
        131 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC

                 *        
        939 ACCCTTCACCTTGT
        196 ACCCTCCACCTTGT

        953 TTTGAGGCTT


Statistics
Matches: 609,  Mismatches: 55, Indels: 2
        0.91            0.08        0.00

Matches are distributed among these distances:
 227    4  0.01
 228  605  0.99

ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20


Consensus pattern (228 bp):   
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT

Found at i:975 original size:228 final size:228

Alignment explanation


    Indices: 60--1180  Score: 1301
    Period size: 228  Copynumber: 4.9  Consensus size: 228

         50 CTCTCAAAAG

                                                               *        *    
         60 ATGCAGATCTTCGTCAAAACCCTT-ACCGGCAAGACCATCACCCTCGAGGTTGAGAGTTCTGACA
          1 ATGCAGATCTTCGTCAAAA-CCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGTTCGGACA

                                                                             
        124 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC
         65 CCATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTC

                       *              *                    *     *           
        189 ATCTTCGCCGGCAAACAGCTCGAGGACGGCCGTACCTTGGCCGATTACAACATTCAGAAGGAATC
        130 ATCTTCGCCGGAAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATC

                               *             *
        254 CACCCTCCACCTTGTCCTCCGTCTTCGTGGGGGT
        195 CACCCTCCACCTTGTCCTCAGTCTTCGTGGGGGC

                                                           *        *  *     
        288 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCCGACAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGTTCGGACAC

                        *           *                                        
        353 CATCGATAATGTGAAGTCTAAAATCCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                                  *                       *                  
        418 TCTTCGCCGGAAAACAGCTCGAAGATGGCCGTACCTTGGCCGATTACAACATCCAGAAGGAATCC
        131 TCTTCGCCGGAAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC

                                             *
        483 ACCCTCCACCTTGTCCT-ACGTCTTCGTGGGGGT
        196 ACCCTCCACCTTGTCCTCA-GTCTTCGTGGGGGC

                                                           *        *  *     
        516 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAAGTCGAGAGCTCTGACAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGTTCGGACAC

                                                                             
        581 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                      *           *  *                       *               
        646 TCTTCGCCGGCAAACAGCTCGAAGACGGCCGTACCTTGGCCGATTATAATATCCAGAAGGAATCC
        131 TCTTCGCCGGAAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC

                       *      *       *      
        711 ACCCTCCACCTCGTCCTCCGTCTTCGCGGGGGC
        196 ACCCTCCACCTTGTCCTCAGTCTTCGTGGGGGC

                          *        *  *               * *     *              
        744 ATGCAGATCTTCGTGAAAACCTTGACTGGCAAGACCATCACCTTAGAGGTGGAGAGTTCGGACAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGTTCGGACAC

                  *         * *  *                 *              *  *   * * 
        809 CATCGACAATGTAAAGGCGAAGATTCAAGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                *  *  *  *     *        ** *        *                       *
        874 TCTTTGCAGGGAAGCAGCTTGAGGATGGGAGGACCTTGGCTGATTATAACATCCAGAAGGAATCG
        131 TCTTCGCCGGAAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC

                 *        ** *  *        *   
        939 ACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGC
        196 ACCCTCCACCTTGTCCTCAGTCTTCGTGGGGGC

                    *     *  *  *  *  *  *  *  *     ** *     *  *        *  
        972 ATGCAGATTTTCGTTAAGACATTGACTGGGAAAACAATCACATTGGAGGTGGAAAGTTCGGATAC
          1 ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGTTCGGACAC

            *  *        *   * *  *     *           *     *     *     ** *    
       1037 AATTGATAATGTGAAGGCGAAGATTCAGGACAAGGAAGGTATCCCTCCAGATCAGCAAAGGCTCA
         66 CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA

                *  *     *  ** *        ** *  *  *  *           *     *  *   
       1102 TCTTTGCTGGAAAGCAATTGGAGGATGGGAGGACTTTAGCTGATTATAACATTCAGAAAGAGTCC
        131 TCTTCGCCGGAAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC

                 *        
       1167 ACCCTTCACCTTGT
        196 ACCCTCCACCTTGT

       1181 TCTTCGTCTC


Statistics
Matches: 793,  Mismatches: 97, Indels: 6
        0.89            0.11        0.01

Matches are distributed among these distances:
 227    4  0.01
 228  789  0.99

ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21


Consensus pattern (228 bp):   
ATGCAGATCTTCGTCAAAACCTTAACCGGCAAGACCATCACCCTCGAGGTCGAGAGTTCGGACAC
CATCGATAATGTAAAGTCTAAAATTCAAGACAAGGAAGGCATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCCGGAAAACAGCTCGAGGATGGCCGTACCTTGGCCGATTATAACATCCAGAAGGAATCC
ACCCTCCACCTTGTCCTCAGTCTTCGTGGGGGC

Done.