Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g01348.C14

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: 2510
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26


Found at i:337 original size:27 final size:27

Alignment explanation


    Indices: 303--522  Score: 251
    Period size: 27  Copynumber: 8.1  Consensus size: 27

        293 CGACTATTGC

                    *                * 
        303 CCTACCCAGCAGCAATTCGATCACCTG
          1 CCTACCCAACAGCAATTCGATCACCGG

              **    *                  
        330 CCGGCCCAGCAGCAATTCGATCACCGG
          1 CCTACCCAACAGCAATTCGATCACCGG

                         *      *      
        357 CCTACCCAACAGCCATTCGAACACCGG
          1 CCTACCCAACAGCAATTCGATCACCGG

                             *     *   
        384 CCTACCCAACAGCAATTTGATCAACGG
          1 CCTACCCAACAGCAATTCGATCACCGG

                *        *      *      
        411 CCTAACCAACAGCCATTCGAACACCGG
          1 CCTACCCAACAGCAATTCGATCACCGG

                *        *      * *    
        438 CCTAACCAACAGCCATTCGAGCGCCGG
          1 CCTACCCAACAGCAATTCGATCACCGG

                *   *                  
        465 CCTAACCAGCAGCAATTCGATCACCGG
          1 CCTACCCAACAGCAATTCGATCACCGG

                    *           *    * 
        492 CCTACCCAGCAGCAATTCGAACACCAG
          1 CCTACCCAACAGCAATTCGATCACCGG

                
        519 CCTA
          1 CCTA

        523 GTCAGCAGCA


Statistics
Matches: 167,  Mismatches: 26, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  27  167  1.00

ACGTcount: A:0.29, C:0.40, G:0.17, T:0.14


Consensus pattern (27 bp):   
CCTACCCAACAGCAATTCGATCACCGG

Found at i:362 original size:54 final size:54

Alignment explanation


    Indices: 303--548  Score: 267
    Period size: 54  Copynumber: 4.6  Consensus size: 54

        293 CGACTATTGC

                *               *    *   **    *                  
        303 CCTACCCAGCAGCAATTCGATCACCTGCCGGCCCAGCAGCAATTCGATCACCGG
          1 CCTAACCAGCAGCAATTCGAACACCGGCCTACCCAACAGCAATTCGATCACCGG

                *   *    *                              *     *   
        357 CCTACCCAACAGCCATTCGAACACCGGCCTACCCAACAGCAATTTGATCAACGG
          1 CCTAACCAGCAGCAATTCGAACACCGGCCTACCCAACAGCAATTCGATCACCGG

                    *    *                 *        *      * *    
        411 CCTAACCAACAGCCATTCGAACACCGGCCTAACCAACAGCCATTCGAGCGCCGG
          1 CCTAACCAGCAGCAATTCGAACACCGGCCTACCCAACAGCAATTCGATCACCGG

                                *              *           *    * 
        465 CCTAACCAGCAGCAATTCGATCACCGGCCTACCCAGCAGCAATTCGAACACCAG
          1 CCTAACCAGCAGCAATTCGAACACCGGCCTACCCAACAGCAATTCGATCACCGG

                **           *       *    
        519 CCTAGTCAGCAGCAATTTGAACACCAGCCT
          1 CCTAACCAGCAGCAATTCGAACACCGGCCT

        549 GGCAATCAGC


Statistics
Matches: 162,  Mismatches: 30, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  54  162  1.00

ACGTcount: A:0.29, C:0.39, G:0.17, T:0.14


Consensus pattern (54 bp):   
CCTAACCAGCAGCAATTCGAACACCGGCCTACCCAACAGCAATTCGATCACCGG

Found at i:429 original size:81 final size:81

Alignment explanation


    Indices: 303--522  Score: 305
    Period size: 81  Copynumber: 2.7  Consensus size: 81

        293 CGACTATTGC

                                     *   **                *          *      
        303 CCTACCCAGCAGCAATTCGATCACCTGCCGGCCCAGCAGCAATTCGATCACCGGCCTACCCAACA
          1 CCTACCCAGCAGCAATTCGATCACCGGCCTACCCAGCAGCAATTCGAACACCGGCCTAACCAACA

                            
        368 GCCATTCGAACACCGG
         66 GCCATTCGAACACCGG

                    *        *     *       *   *    *                        
        384 CCTACCCAACAGCAATTTGATCAACGGCCTAACCAACAGCCATTCGAACACCGGCCTAACCAACA
          1 CCTACCCAGCAGCAATTCGATCACCGGCCTACCCAGCAGCAATTCGAACACCGGCCTAACCAACA

                     * *    
        449 GCCATTCGAGCGCCGG
         66 GCCATTCGAACACCGG

                *                                               *     
        465 CCTAACCAGCAGCAATTCGATCACCGGCCTACCCAGCAGCAATTCGAACACCAGCCTA
          1 CCTACCCAGCAGCAATTCGATCACCGGCCTACCCAGCAGCAATTCGAACACCGGCCTA

        523 GTCAGCAGCA


Statistics
Matches: 118,  Mismatches: 21, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  81  118  1.00

ACGTcount: A:0.29, C:0.40, G:0.17, T:0.14


Consensus pattern (81 bp):   
CCTACCCAGCAGCAATTCGATCACCGGCCTACCCAGCAGCAATTCGAACACCGGCCTAACCAACA
GCCATTCGAACACCGG

Found at i:528 original size:27 final size:27

Alignment explanation


    Indices: 303--548  Score: 240
    Period size: 27  Copynumber: 9.1  Consensus size: 27

        293 CGACTATTGC

                *               *    * 
        303 CCTACCCAGCAGCAATTCGATCACCTG
          1 CCTAACCAGCAGCAATTCGAACACCGG

              ***               *      
        330 CCGGCCCAGCAGCAATTCGATCACCGG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                *   *    *             
        357 CCTACCCAACAGCCATTCGAACACCGG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                *   *        *  *  *   
        384 CCTACCCAACAGCAATTTGATCAACGG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                    *    *             
        411 CCTAACCAACAGCCATTCGAACACCGG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                    *    *      * *    
        438 CCTAACCAACAGCCATTCGAGCGCCGG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                                *      
        465 CCTAACCAGCAGCAATTCGATCACCGG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                *                    * 
        492 CCTACCCAGCAGCAATTCGAACACCAG
          1 CCTAACCAGCAGCAATTCGAACACCGG

                **           *       * 
        519 CCTAGTCAGCAGCAATTTGAACACCAG
          1 CCTAACCAGCAGCAATTCGAACACCGG

               
        546 CCT
          1 CCT

        549 GGCAATCAGC


Statistics
Matches: 190,  Mismatches: 29, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  27  190  1.00

ACGTcount: A:0.29, C:0.39, G:0.17, T:0.14


Consensus pattern (27 bp):   
CCTAACCAGCAGCAATTCGAACACCGG

Done.