Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g02046.F5

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: 3681
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29


Found at i:1273 original size:216 final size:217

Alignment explanation


    Indices: 964--1559  Score: 831
    Period size: 216  Copynumber: 2.8  Consensus size: 217

        954 ATGGTATCAG

                  *     *        *        * * *  *       *         *     *   
        964 AGATGGATTTAGCTCCTGATATAGAAAAGGTTTCTCCCCCACTGGGAGC-TTCTGATATTGGAAG
          1 AGATGGCTTTAGTTCCTGATACAGAAAAGGCTGCGCCTCCACTGGAAGCTTTCTGCTATTGAAAG

                             **              **   ***                        
       1028 TGAAATTACAACTGAATCGGCTCCTTCAGAGTCTGGTTTGGAAAGTGAAGTTCCCCACAGTGTTA
         66 TGAAATTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTGAAGTTCCCCACAGTGTTA

                               *                 *        **             *   
       1093 AGTTGGAAGAAGAAGAAAACGCTGGTGCTGAGGAAAATGGTGAGGGGTTTGGTAAAATTGAGTGT
        131 AGTTGGAAGAAGAAGAAAATGCTGGTGCTGAGGAAAAAGGTGAGGGAATTGGTAAAATTGAATGT

                                  
       1158 ACTATTTTGAATACAGAGTCTA
        196 ACTATTTTGAATACAGAGTCTA

                           *                    *      *                     
       1180 AGATGGCTTTAGTTCTTGATACAGAAAAGGCTGCGCTTCCACTTGAAG-TTTCTGCTATTGAAAG
          1 AGATGGCTTTAGTTCCTGATACAGAAAAGGCTGCGCCTCCACTGGAAGCTTTCTGCTATTGAAAG

                                                                             
       1244 TGAAATTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTGAAGTTCCCCACAGTGTTA
         66 TGAAATTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTGAAGTTCCCCACAGTGTTA

                      *  *                                                   
       1309 AGTTGGAAGAGGATGAAAATGCTGGTGCTGAGGAAAAAGGTGAGGGAATTGGTAAAATTGAATGT
        131 AGTTGGAAGAAGAAGAAAATGCTGGTGCTGAGGAAAAAGGTGAGGGAATTGGTAAAATTGAATGT

            *                     
       1374 TCTATTTTGAATACAGAGTCTA
        196 ACTATTTTGAATACAGAGTCTA

                                            * *                              
       1396 AGATGGCTTTAGTTCCTGATACAGAAAAGGCTTCTCCTCCACTGGAAGCTTT-TGCTATTGAAAG
          1 AGATGGCTTTAGTTCCTGATACAGAAAAGGCTGCGCCTCCACTGGAAGCTTTCTGCTATTGAAAG

                 *        *                               *          *      *
       1460 TGAAACTACAACTGCATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTAAAGTTCCCCAGAGTGTTC
         66 TGAAATTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTGAAGTTCCCCACAGTGTTA

                                 *              
       1525 AGTTGGAA-AAGGAAGAAAATACTGGTGCTGAGGAA
        131 AGTTGGAAGAA-GAAGAAAATGCTGGTGCTGAGGAA

       1560 GAAGAAAAGG


Statistics
Matches: 336,  Mismatches: 41, Indels: 6
        0.88            0.11        0.02

Matches are distributed among these distances:
 215    1  0.00
 216  332  0.99
 217    3  0.01

ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28


Consensus pattern (217 bp):   
AGATGGCTTTAGTTCCTGATACAGAAAAGGCTGCGCCTCCACTGGAAGCTTTCTGCTATTGAAAG
TGAAATTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTGAAGTTCCCCACAGTGTTA
AGTTGGAAGAAGAAGAAAATGCTGGTGCTGAGGAAAAAGGTGAGGGAATTGGTAAAATTGAATGT
ACTATTTTGAATACAGAGTCTA

Found at i:1626 original size:144 final size:144

Alignment explanation


    Indices: 1418--1703  Score: 446
    Period size: 144  Copynumber: 2.0  Consensus size: 144

       1408 TTCCTGATAC

                                         *   *                      *  *     
       1418 AGAAAAGGCTTCTCCTCCACTGGAAGCTTTTGCTATTGAAAGTGAAACTACAACTGCATTAGCTC
          1 AGAAAAGGCTTCTCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAACTACAACTGAATCAGCTC

                                       *             *                   *   
       1483 CTTCAGAGTCCAGTTCCAAAAGTAAAGTTCCCCAGAGTGTTCAGTTGGAAAAGGAAGAAAATACT
         66 CTTCAGAGTCCAGTTCCAAAAGTAAAGATCCCCAGAGTGTTAAGTTGGAAAAGGAAGAAAACACT

            *             
       1548 GGTGCTGAGGAAGA
        131 AGTGCTGAGGAAGA

                                                           *                 
       1562 AGAAAAGGCTTCTCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAATTACAACTGAATCAGCTC
          1 AGAAAAGGCTTCTCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAACTACAACTGAATCAGCTC

               *       *           *                          *        *     
       1627 CTTTAGAGTCCGGTTCCAAAAGTGAAGATCCCCAGAGTGTTAAGTTGGAAGAGGAAGAAGACACT
         66 CTTCAGAGTCCAGTTCCAAAAGTAAAGATCCCCAGAGTGTTAAGTTGGAAAAGGAAGAAAACACT

                        
       1692 AGTGCTGAGGAA
        131 AGTGCTGAGGAA

       1704 AAAGGTGAAA


Statistics
Matches: 128,  Mismatches: 14, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
 144  128  1.00

ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23


Consensus pattern (144 bp):   
AGAAAAGGCTTCTCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAACTACAACTGAATCAGCTC
CTTCAGAGTCCAGTTCCAAAAGTAAAGATCCCCAGAGTGTTAAGTTGGAAAAGGAAGAAAACACT
AGTGCTGAGGAAGA

Found at i:1863 original size:360 final size:360

Alignment explanation


    Indices: 1202--1864  Score: 977
    Period size: 360  Copynumber: 1.8  Consensus size: 360

       1192 TTCTTGATAC

                          *      *    *      *                         *     
       1202 AGAAAAGGCTGCGCTTCCACTTGAAGTTTCTGCTATTGAAAGTGAAATTACAACTGAATTAGCTC
          1 AGAAAAGGCTGCGCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAATTACAACTGAATCAGCTC

                                       *                           *     **  
       1267 CTTCAGAGTCCAGTTCCAAAAGTGAAGTTCCCCACAGTGTTAAGTTGGAAGAGGATGAAAATGCT
         66 CTTCAGAGTCCAGTTCCAAAAGTGAAGATCCCCACAGTGTTAAGTTGGAAGAGGAAGAAAACACT

            *                   **                    *   *  *               
       1332 GGTGCTGAGGAAAAAGGTGAGGGAATTGGTAAAATTGAATGTTCTATTTTGAATACAGAGTCTAA
        131 AGTGCTGAGGAAAAAGGTGAAAGAATTGGTAAAATTGAATGTACTACTTCGAATACAGAGTCTAA

                                                             **     *        
       1397 GATGGCTTTAGTTCCTGATACAGAAAAGGCTTCTCCTCCACTGGAAGCTTTTGCTATTGAAAGTG
        196 GATGGCTTTAGTTCCTGATACAGAAAAGGCTTCTCCTCCACTGGAAGCTCCTGCTAGTGAAAGTG

                        *                                                    
       1462 AAACTACAACTGCATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTAAAGTTCCCCAGAGTGTTCAG
        261 AAACTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTAAAGTTCCCCAGAGTGTTCAG

                                               
       1527 TTGGAAAAGGAAGAAAATACTGGTGCTGAGGAAGA
        326 TTGGAAAAGGAAGAAAATACTGGTGCTGAGGAAGA

                      * *                                                    
       1562 AGAAAAGGCTTCTCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAATTACAACTGAATCAGCTC
          1 AGAAAAGGCTGCGCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAATTACAACTGAATCAGCTC

               *       *                      *                        *     
       1627 CTTTAGAGTCCGGTTCCAAAAGTGAAGATCCCCAGAGTGTTAAGTTGGAAGAGGAAGAAGACACT
         66 CTTCAGAGTCCAGTTCCAAAAGTGAAGATCCCCACAGTGTTAAGTTGGAAGAGGAAGAAAACACT

                                             *    *                **        
       1692 AGTGCTGAGGAAAAAGGTGAAAGAATTGGTAAATTTGAGTGTACTACTTCGAATATGGAGTCTAA
        131 AGTGCTGAGGAAAAAGGTGAAAGAATTGGTAAAATTGAATGTACTACTTCGAATACAGAGTCTAA

                               **                   *                  *     
       1757 GATGGCTTTAGTTCCTGATTTAGAAAAGGCTTCTCCTCCATTGGAAGCTCCTGCTAGTGGAAGTG
        196 GATGGCTTTAGTTCCTGATACAGAAAAGGCTTCTCCTCCACTGGAAGCTCCTGCTAGTGAAAGTG

                  *             *   *       *           
       1822 AAACTAGAACTGAATTAGCTTCTTTAGAG-CTTAGTTCCAAAAG
        261 AAACTACAACTGAATTAGCTCCTTCAGAGTC-CAGTTCCAAAAG

       1865 CGAAGTTTCT


Statistics
Matches: 265,  Mismatches: 37, Indels: 2
        0.87            0.12        0.01

Matches are distributed among these distances:
 359    1  0.00
 360  264  1.00

ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27


Consensus pattern (360 bp):   
AGAAAAGGCTGCGCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAATTACAACTGAATCAGCTC
CTTCAGAGTCCAGTTCCAAAAGTGAAGATCCCCACAGTGTTAAGTTGGAAGAGGAAGAAAACACT
AGTGCTGAGGAAAAAGGTGAAAGAATTGGTAAAATTGAATGTACTACTTCGAATACAGAGTCTAA
GATGGCTTTAGTTCCTGATACAGAAAAGGCTTCTCCTCCACTGGAAGCTCCTGCTAGTGAAAGTG
AAACTACAACTGAATTAGCTCCTTCAGAGTCCAGTTCCAAAAGTAAAGTTCCCCAGAGTGTTCAG
TTGGAAAAGGAAGAAAATACTGGTGCTGAGGAAGA

Found at i:1936 original size:216 final size:216

Alignment explanation


    Indices: 1562--1977  Score: 521
    Period size: 216  Copynumber: 1.9  Consensus size: 216

       1552 CTGAGGAAGA

                                        *      *           *                 
       1562 AGAAAAGGCTTCTCCTCCACTGGAAGCTTCTGCCATTGAAAGTGAAATTACAACTGAATCAGCTC
          1 AGAAAAGGCTTCTCCTCCACTGGAAGCTCCTGCCAGTGAAAGTGAAACTACAACTGAATCAGCTC

                       *          *           *                        *     
       1627 CTTTAGAGTCCGGTTCCAAAAGTGAAGATCCCCAGAGTGTTAAGTTGGAAGAGGAAGAAGACACT
         66 CTTTAGAGTCCAGTTCCAAAAGCGAAGATCCCCACAGTGTTAAGTTGGAAGAGGAAGAAAACACT

                 *                           *    **                   *     
       1692 AGTGCTGAGGAAAAAGGTGAAAGAATTGGTAAATTTGAGTGTACTACTTCGAATATGGAGTCTAA
        131 AGTGCCGAGGAAAAAGGTGAAAGAATTGGTAAAATTGAAAGTACTACTTCGAATATGGAATCTAA

                                 
       1757 GATGGCTTTAGTTCCTGATTT
        196 GATGGCTTTAGTTCCTGATTT

                               *             *    *           *        *    *
       1778 AGAAAAGGCTTCTCCTCCATTGGAAGCTCCTGCTAGTGGAAGTGAAACTAGAACTGAATTAGCTT
          1 AGAAAAGGCTTCTCCTCCACTGGAAGCTCCTGCCAGTGAAAGTGAAACTACAACTGAATCAGCTC

                       *                * * *                  *           * 
       1843 CTTTAGAG-CTTAGTTCCAAAAGCGAAGTTTCTCACAGTGTTAA-TCTGGAGGAGGAAGAAAATA
         66 CTTTAGAGTC-CAGTTCCAAAAGCGAAGATCCCCACAGTGTTAAGT-TGGAAGAGGAAGAAAACA

            * *      *      *     *                      *     *             
       1906 GTGGTGCCGGGGAAAATGGTGAGAGAATTGGTAAAATTGAAAGTATTACTTTGAATATGGAATCT
        129 CTAGTGCCGAGGAAAAAGGTGAAAGAATTGGTAAAATTGAAAGTACTACTTCGAATATGGAATCT

                   
       1971 AAGATGG
        194 AAGATGG

       1978 ACTTAGCAGT


Statistics
Matches: 167,  Mismatches: 31, Indels: 4
        0.83            0.15        0.02

Matches are distributed among these distances:
 215    2  0.01
 216  165  0.99

ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27


Consensus pattern (216 bp):   
AGAAAAGGCTTCTCCTCCACTGGAAGCTCCTGCCAGTGAAAGTGAAACTACAACTGAATCAGCTC
CTTTAGAGTCCAGTTCCAAAAGCGAAGATCCCCACAGTGTTAAGTTGGAAGAGGAAGAAAACACT
AGTGCCGAGGAAAAAGGTGAAAGAATTGGTAAAATTGAAAGTACTACTTCGAATATGGAATCTAA
GATGGCTTTAGTTCCTGATTT
Done.