Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g01808.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: 6158
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29


Found at i:4754 original size:405 final size:398

Alignment explanation


    Indices: 3803--5212  Score: 1422
    Period size: 405  Copynumber: 3.6  Consensus size: 398

       3793 CAGTGTTGGA

                                      *                 *                    
       3803 CTGCCTGTTCTTGAAGCAAGATCAGTAGAAGATATTGATTTGGCATTTAAGCAACTTCATGAAGG
          1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG

                   *                      *      *                  *       *
       3868 AGCTGATTTTGAGGAAGTAATTCTTCCAAGGATGATTAAGAATCAGCCGGATCATGCAGATACGA
         66 AG-TGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATAC-C

                  * *                **                             *    **  
       3933 AC-TCGGATTTACCTGTTGTCGAGGTGAGATCTCTGGAGGATATACATAATGCTTTGC-T-GCAG
        129 ACTTC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAG

                                 *                                           
       3995 GACCCAGAACCTAATCTAGCTCAGCTGCCACATTCCA-CAGACTTGAGGAATGGATCATCAGAAG
        193 GA-CCAGAACCTAATCTAGCTGAGCTGCCACATTCCAGCAGACTTGAGGAATGGATCATCAGAAG

                        *   *                        * *     *               
       4059 TAGAGCAGCATGTTGTTGTTTCTTCTGAAGAGATTGAAGTTAGTAATGCTGTCTCTGGTATTGAA
        257 TAGAGCAGCATGATGTGGTTTCTTCT-AAGAGATTGAAGTTGGCAATGCAGTCTCTGGTATTGAA

               ** *  * *      *   *      *     *                             
       4124 GAAGGTTTTGATAATGCTGCTGGTGAACCCAAAAATGAAGAAGAAATAGAAGAACTAAAGACAGA
        321 GAACATCTTCAGAATGCTCCTGATGAACCAAAAAAAGAAGAAGAAATAGAAGAACTAAAGACAGA

                    *    
       4189 AACCAATGTGGAG
        386 AACCAATGCGGAG

            * *                                                              
       4202 TTACCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
          1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG

                                          *             *   *                
       4267 AGTGGATGTTGAGGAAGTAATTCTTCCAAGTATGATTGAGAATCTGCCAGATCAT-ACAGATACC
         66 AGT-GATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGA-AGATACC

                       *                *                                    
       4331 ACTTCAGAATTTCCTGTTGTCGAGGCAATATCTCTGGATGG-TATACATAATGCTTT-CATAAAA
        129 ACTTCA-AATTACCTGTTGTCGAGGCAAGATCTCTGGA-GGATATACATAATGCTTTCCATAAAA

                 *          *                 *              *               
       4394 GGACCGGAACCTAATCCAGCTGAGCTGCCACA-TACAGCAGACTTGAGGCATGGATCATCAGAAG
        192 GGACCAGAACCTAATCTAGCTGAGCTGCCACATTCCAGCAGACTTGAGGAATGGATCATCAGAAG

                                 *                                           
       4458 TAGAGCAGCATGATGTGGTTTGTTCTAATGAGATTGAAGTTGGCCAA-GCAGTCTCTGGCT-TTG
        257 TAGAGCAGCATGATGTGGTTTCTTCTAA-GAGATTGAAGTTGG-CAATGCAGTCTCTGG-TATTG

                                                                          * *
       4521 AAGAACATCTTCAGAACGTTGCTCCTGATGAACCAAAAAAAGAATATGAAGAAATAGAAGAATTG
        319 AAGAACATCTTCAGAA---TGCTCCTGATGAACCAAAAAAAG-A-A-GAAGAAATAGAAGAACTA

                **  *            
       4586 AAGATGGAGACCAATGCGGAG
        378 AAGACAGAAACCAATGCGGAG

                       *  *        *                                         
       4607 CTGCCTGTTCTGGATGCAAGATCGGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
          1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG

            *                  * *   *              *      *             *   
       4672 TGTAGATGTTGAGGAAGTAGTACTTGCAAGCATGATTGAGGATCAGCTGGATCATGAAGATTCCA
         66 AGT-GATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA

                                                                             
       4737 CTTCAAAGTTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCA-AAAAGG
        130 CTTCAAA-TTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAGG

            *              *                               *               * 
       4801 TCCAGAACCTAATCTGGCTGAGCTGCCA-ATTTCCAG-AGACTTGAGAAATGGATCATCAGAAAT
        194 ACCAGAACCTAATCTAGCTGAGCTGCCACA-TTCCAGCAGACTTGAGGAATGGATCATCAGAAGT

            *             *       **                                         
       4864 GGAGCAGCATGATGCGGTTTCTAATAAAGAGATTGAAGTT-G-AA---A---------A-T--AG
        258 AGAGCAGCATGATGTGGTTTCTTCT-AAGAGATTGAAGTTGGCAATGCAGTCTCTGGTATTGAAG

                                *              *             *   *   * *    *
       4912 -------TCAGAATGCTGCCAG-TGAACCAAAAAATGACCATGAAGAAACAGAGGAAATGAAGAT
        322 AACATCTTCAGAATGCT-CCTGATGAACCAAAAAAAGA--A-GAAGAAATAGAAGAACTAAAGAC

            *  *        *   
       4969 GGAGACCAATGCAGAG
        383 AGAAACCAATGCGGAG

                                    * *     *                            *   
       4985 CTGCCTGTTCTTGAAGCAAGATCACTGGAAGACATTGATTTGGCTTTTAAGCAACTTCATGGAGG
          1 CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG

                                                           *  * *   *      * 
       5050 AGTTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCAGGGTGATGCAGATACTA
         66 AG-TGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCA

            *    * *     *     *     *                    * *      *    *    
       5115 ATTCGGATTTACCAGTTGTTGAGGCGAGATCTCTGGAGGATATACAGAGTGCTTTTCA-ACAAGG
        130 CTTC-AAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAGG

            *      *              *           
       5179 CCCAGAATCTAATCTAGCTGAGGTGCCACATTCC
        194 ACCAGAACCTAATCTAGCTGAGCTGCCACATTCC

       5213 TCAGGAGTAG


Statistics
Matches: 866,  Mismatches: 115, Indels: 81
        0.82            0.11        0.08

Matches are distributed among these distances:
 377    1  0.00
 378  244  0.28
 379    6  0.01
 381    6  0.01
 388    2  0.00
 390    1  0.00
 398    9  0.01
 399  271  0.31
 400   10  0.01
 402   21  0.02
 403    1  0.00
 404    7  0.01
 405  278  0.32
 406    9  0.01

ACGTcount: A:0.32, C:0.17, G:0.25, T:0.27


Consensus pattern (398 bp):   
CTGCCTGTTCTTGAAGCAAGATCAGTTGAAGATATTGATTTGGCTTTTAAGCAACTTCATGAAGG
AGTGATGTTGAGGAAGTAATTCTTCCAAGCATGATTGAGAATCAGCCGGATCATGAAGATACCAC
TTCAAATTACCTGTTGTCGAGGCAAGATCTCTGGAGGATATACATAATGCTTTCCATAAAAGGAC
CAGAACCTAATCTAGCTGAGCTGCCACATTCCAGCAGACTTGAGGAATGGATCATCAGAAGTAGA
GCAGCATGATGTGGTTTCTTCTAAGAGATTGAAGTTGGCAATGCAGTCTCTGGTATTGAAGAACA
TCTTCAGAATGCTCCTGATGAACCAAAAAAAGAAGAAGAAATAGAAGAACTAAAGACAGAAACCA
ATGCGGAG
Done.