Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01150.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: 4277
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32


Found at i:3260 original size:48 final size:48

Alignment explanation


    Indices: 3175--3699  Score: 559
    Period size: 48  Copynumber: 10.9  Consensus size: 48

       3165 ATACTAGGGG

                *    *                   *          *       
       3175 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

                      *  *           *                 * ** 
       3223 TATGAGAGCTTGTATAAGACCATGTCTGGGACATGGCAT-GGCCTCGA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

                *    *                   *      *           
       3270 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGTATCGGCATTTA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

            *                        *                 * ** 
       3318 AATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

                *    *                   *    * *    *      
       3366 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATAGTATCGACATTTA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

                                     *     *         * * ** 
       3414 TATGAGAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGACCTCGA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

                *                        *                  
       3462 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

                                     *             *        
       3510 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCATTTA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

               *                                    *  * ** 
       3558 TATTAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

            * * *   * *                  *         *       *  
       3606 CAGGTGAGATTGT-TAAGACCATGTTTGGAACATGGCATTGGCACTGATA
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-T-TTA

                 *   *               *                   
       3655 TATGAAAGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCAT
          1 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCAT

       3700 CTTACCTTTT


Statistics
Matches: 382,  Mismatches: 91, Indels: 7
        0.80            0.19        0.01

Matches are distributed among these distances:
  47   62  0.16
  48  285  0.75
  49    8  0.02
  50   27  0.07

ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27


Consensus pattern (48 bp):   
TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTTA

Found at i:3405 original size:96 final size:96

Alignment explanation


    Indices: 3175--3699  Score: 698
    Period size: 96  Copynumber: 5.5  Consensus size: 96

       3165 ATACTAGGGG

                                                    *                 *  *   
       3175 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTATATGAGAGCTTGTATAA
          1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA

                                           
       3240 GACCATGTCTGGGACATGGCAT-GGCCTCGA
         66 GACCATGTCTGGGACATGGCATCGGCCTCGA

                                                *           *                
       3270 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGTATCGGCATTTAAATGAGAGCTAGTGTAA
          1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA

                                           
       3335 GACCATGTCTGGGACATGGCATCGGCCTCGA
         66 GACCATGTCTGGGACATGGCATCGGCCTCGA

                                              * *    *                       
       3366 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATAGTATCGACATTTATATGAGAGCTAGTGTAA
          1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA

                          *         *      
       3431 GACCATGTCTGGGATATGGCATCGACCTCGA
         66 GACCATGTCTGGGACATGGCATCGGCCTCGA

                     *                                                       
       3462 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
          1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA

                                  *   * ** 
       3527 GACCATGTCTGGGACATGGCATTGGCATTTA
         66 GACCATGTCTGGGACATGGCATCGGCCTCGA

                      *                   *          *  * ** * * *   * *     
       3558 TAT-TAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAACAGGTGAGATTGT-TA
          1 TATGT-GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTA

                     *   *         *         
       3621 AGACCATGTTTGGAACATGGCATTGGCACT-GA
         65 AGACCATGTCTGGGACATGGCATCGGC-CTCGA

               *                       *   *               
       3653 TATATGAAAGCCAGTGTAAGACCATGTATGGGACATGGCATCGGCAT
          1 TATGTG--AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT

       3700 CTTACCTTTT


Statistics
Matches: 386,  Mismatches: 38, Indels: 10
        0.89            0.09        0.02

Matches are distributed among these distances:
  95  115  0.30
  96  236  0.61
  97   35  0.09

ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27


Consensus pattern (96 bp):   
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTGGGACATGGCATCGGCCTCGA

Done.