Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g02563.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, 1000

Length: 1764
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27


Found at i:578 original size:267 final size:267

Alignment explanation


    Indices: 103--1170  Score: 1845
    Period size: 267  Copynumber: 4.0  Consensus size: 267

         93 TTCTGCATAT

                     *     * *                                               
        103 AGGATCTTTTGTCACCGCGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA
          1 AGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA

                                                                             
        168 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA
         66 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA

                   *         *                              *                
        233 GCTGTCATATGAGAACATCTCTCCTGTCCAAGGGCATGCAGATTTTCATAACATCCTTGCAAACT
        131 GCTGTCACATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAACT

                                *                                            
        298 CTCTAACTGAAGCTGACCATTATATAGAAAGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA
        196 CTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA

                   
        363 AATATAG
        261 AATATAG

                         *  *                     *               *          
        370 AGGATCTTTCGTCGCTTTGGTTCTTTGATGTGGAAAAAAATGATTTGGAAAACCATCATCTGCCA
          1 AGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA

                                                           *                 
        435 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCGAATCAAGAGAATATGAA
         66 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA

                                                                           * 
        500 GCTGTCACATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAATT
        131 GCTGTCACATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAACT

                                         *                                   
        565 CTCTAACTGAAGCTGACCATAATATAGAACGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA
        196 CTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA

                   
        630 AATATAG
        261 AATATAG

                                  *                                          
        637 AGGATCTTTCGTCACTGTGGTTTTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA
          1 AGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA

                                                     *                       
        702 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCTAGAGCAAATCAAGAGAATATGAA
         66 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA

                   *                                                         
        767 GCTGTCATATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAACT
        131 GCTGTCACATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAACT

                                   *           *                             
        832 CTCTAACTGAAGCTGACCATAATGTAGAAAGTAAATCAGAGAGGCTCGAGCTAAAAGACATCACA
        196 CTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA

                   
        897 AATATAG
        261 AATATAG

                                                                             
        904 AGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA
          1 AGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA

                                                                             
        969 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA
         66 GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA

                                   *       *        *     *           *      
       1034 GCTGTCACATGAGAACACCTCTCTTGTCCAAAGGCATGCATATTTTGAGAACATCCTTTCAAACT
        131 GCTGTCACATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAACT

                 * *                          *             *     *          
       1099 CTCTAGCCGAAGCTGACCAT-A-A-AGAAAGTAACCCAGAGAGGCTCGGGCTAAGAGACATCACA
        196 CTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA

                 * 
       1161 AATATGG
        261 AATATAG

               
       1168 AGG
          1 AGG

       1171 TAACGGTGCA


Statistics
Matches: 759,  Mismatches: 42, Indels: 3
        0.94            0.05        0.00

Matches are distributed among these distances:
 264   45  0.06
 266    1  0.00
 267  713  0.94

ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25


Consensus pattern (267 bp):   
AGGATCTTTCGTCACTGTGGTTCTTTGATGTGGAAAAATATGATTTGGAAAACCGTCATCTGCCA
GATTTTGGACATCAATATCCGGGTGAAGGCAGCAGTGATGCCAGAGCAAATCAAGAGAATATGAA
GCTGTCACATGAGAACACCTCTCCTGTCCAAGGGCATGCAGATTTTCAGAACATCCTTGCAAACT
CTCTAACTGAAGCTGACCATAATATAGAAAGTAAACCAGAGAGGCTCGAGCTAAAAGACATCACA
AATATAG

Done.