Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g02230.M1

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: 9538
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26


Found at i:4531 original size:381 final size:381

Alignment explanation


    Indices: 3915--4803  Score: 1616
    Period size: 381  Copynumber: 2.3  Consensus size: 381

       3905 AGAAAGCTTG

                                  *                                          
       3915 AGGACAGAATGAAGATGGCTGACGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
          1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT

                                                                        *  * 
       3980 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGCACGA
         66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA

                                                               **            
       4045 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATTGACCAAGCTACCA
        131 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA

                                                                          *  
       4110 TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAATCT
        196 TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT

                                                                             
       4175 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCATGCTGCTGCTATTGAACAAAAGCT
        261 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCATGCTGCTGCTATTGAACAAAAGCT

                                                               *    
       4240 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAATCTTA
        326 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA

                                                                   *         
       4296 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACCGTTGCTTTT
          1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT

                                                                             
       4361 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
         66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA

                               *    *                                        
       4426 ACAACTTGCAGAATCAGCAGAGGCGATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
        131 ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA

                              *  *                                           
       4491 TGATTGAAGAAGCAGAAACACGTATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
        196 TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT

                        *                          **                        
       4556 TGCACTGAACTTCGCCAGAGGCTTCTGGAGGAGGAGCAGTGTGCTGCTGCTATTGAACAAAAGCT
        261 TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCATGCTGCTGCTATTGAACAAAAGCT

                                  *                                *
       4621 TGAAGATATGGTGGAGAATGACTTTTTGAAGACACAGGAGGAGCTGTCTAAACTTG
        326 TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA

                                           *                                 
       4677 AGGACAGAATGAAGATGGCTGAAGATGACCTAAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
          1 AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT

                                                                          
       4742 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA
         66 GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGA

       4804 TGCTCTTCTA


Statistics
Matches: 489,  Mismatches: 19, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
 381  489  1.00

ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25


Consensus pattern (381 bp):   
AGGACAGAATGAAGATGGCTGAAGATGACCTGAGAAATGCATCTACTTGTGCAACTGTTGCTTTT
GTACTTGTGAATAGATTATCAGAGGCAAACCATAATCATCTCAATGCATTGAAGGGTAAGGACAA
ACAACTTGCAGAATCAGCAAAGGCAATCTTGAGTAAGGATGCTCTTTTGATCAACCAAGCTACCA
TGATTGAAGAAGCAGAAAAACATATTCATTCCCTTGAAACTGAAGTTGAAAAGTCAGAGGAAGCT
TGCACTGAACTTAGCCAGAGGCTTCTGGAGGAGGAGCAGCATGCTGCTGCTATTGAACAAAAGCT
TGAAGATATGGTGGAGAATGACATTTTGAAGACACAGGAGGAGCTGTCTAAACTTA

Found at i:6894 original size:222 final size:221

Alignment explanation


    Indices: 6614--7173  Score: 823
    Period size: 222  Copynumber: 2.5  Consensus size: 221

       6604 CCACTTAACC

                                                                         *   
       6614 GACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCCTTGATGGTTTAAAGAAAGAAATGACTTT
          1 GACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCC-TGATGGTTTAAAGAAAGAAATGATTTT

             *               *                          *                    
       6679 TACAAAATTAGATGCATGTTTGAAAGAGCAGCTATTGGTGGAGCGGGAAAGTGAGTTGTCTTTTC
         65 TGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTTTC

             *                       **            * *          *            
       6744 TCCAAGAAAAAGTTGAAGAAGCACAGGTTGAGCAAAGAATGTTGAAGAAAGAGAACTGTCTACTT
        130 TACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTACTT

                  *       *   *       *
       6809 CTCCAGGATTTGGAGGAGCAGAAAGCT
        195 CTCCAGAATTTGGACGAGAAGAAAGCA

                              *           *                                  
       6836 GACTCTGGGAAAAAGCTTGCCAATGCTTATTCTGTCGCTGATGGTTTAAAGAAAGAAATGATTTT
          1 GACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTGATGGTTTAAAGAAAGAAATGATTTT

                              *       *                                      
       6901 TGCAAAATTAGATGCATACTTGAAAGGGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTTTC
         65 TGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTTTC

                                            **                           *   
       6966 TACAAGAAAAAGTTGAAGAAGCACAAATTGAGTTAAGAAAGATGAAGAAAGAAAACTGTCTGCTT
        130 TACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTACTT

                                 *     
       7031 CTCCAGAATTTGGACGAGAAGGAAGCA
        195 CTCCAGAATTTGGACGAGAAGAAAGCA

               * *  *                            *                     *     
       7058 GACACCGGAAAAAAGCTTACCAATGCTTATGCTGTCATTGATGGTTTAAAGAAAGAAATAATTTT
          1 GACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTC-CTGATGGTTTAAAGAAAGAAATGATTTT

                   *         *                    *            
       7123 TGCAAAAGTAGATGCATTTTTGAAAGAGCAGCTATTGGAGGAGCAGGAAAG
         65 TGCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAG

       7174 GATATCAAAG


Statistics
Matches: 302,  Mismatches: 35, Indels: 2
        0.89            0.10        0.01

Matches are distributed among these distances:
 222  301  1.00
 223    1  0.00

ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26


Consensus pattern (221 bp):   
GACTCTGGGAAAAAGCTTACCAATGCTTATGCTGTCCTGATGGTTTAAAGAAAGAAATGATTTTT
GCAAAATTAGATGCATATTTGAAAGAGCAGCTATTGGTGGAGCAGGAAAGTGAGTTGTCTTTTCT
ACAAGAAAAAGTTGAAGAAGCACAAATTGAGCAAAGAAAGATGAAGAAAGAAAACTGTCTACTTC
TCCAGAATTTGGACGAGAAGAAAGCA
Done.