Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g02400.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: 5347
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31


Found at i:3064 original size:210 final size:210

Alignment explanation


    Indices: 2702--3904  Score: 1492
    Period size: 210  Copynumber: 5.7  Consensus size: 210

       2692 ACAATGCTCT

                             *     ***   *           *         *     *    *  
       2702 TCTCTTGAAAAGCTTAGCATTTCATTTTGTGAAAAATTAAGTAAGATTGGAAACGGATTATCTAC
          1 TCTCTTGAAAAGCTTAGAATTTCCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGACTATCAAC

                                    *   *   *                  *           * 
       2767 CTCCACTTGTCTCAAAGAATTAGACCTACATGCTTGTCCTAATTTAAGTTCAATTCCAAATTTAG
         66 CTCCACTTGTCTCAAAGAATTAGATCTATATGATTGTCCTAATTTAAGTTCCATTCCAAATTTGG

                                   *            **                           
       2832 AAGGATTTTCCTCTCTTCAAAATTTGTCAATTGAGAACTGCAAGAAATTGGGAGTTCTTCCGATA
        131 AAGGATTTTCCTCTCTTCAAAATCTGTCAATTGAGAGGTGCAAGAAATTGGGAGTTCTTCCGATA

             *             
       2897 ATCGGAGGATGTTCA
        196 ACCGGAGGATGTTCA

                                *                          *        *  *     
       2912 TCTCTTGAAAAGCTTAGAATATCCGGTTGCGAAAAATTAAGCAAGATCGGAGACGGGCTGTCAAC
          1 TCTCTTGAAAAGCTTAGAATTTCCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGACTATCAAC

                                   *     *                                   
       2977 CTCCACTTGTCTCAAAGAATTAGGTCTATTTGATTGTCCTAATTTAAGTTCCATTCCAAATTTGG
         66 CTCCACTTGTCTCAAAGAATTAGATCTATATGATTGTCCTAATTTAAGTTCCATTCCAAATTTGG

                      *                     * *         *                    
       3042 AAGGATTTTCGTCTCTTCAAAATCTGTCAATTTACAGGTGCAAGGAATTGGGAGTTCTTCCGATA
        131 AAGGATTTTCCTCTCTTCAAAATCTGTCAATTGAGAGGTGCAAGAAATTGGGAGTTCTTCCGATA

             *            *
       3107 ATCGGAGGATGTTCG
        196 ACCGGAGGATGTTCA

                             *                                 *    *  *     
       3122 TCTCTTGAAAAGCTTAGGATTTCCGGTTGCGAAAAATTAAGCAAGATTGGATACGGGCTGTCAAC
          1 TCTCTTGAAAAGCTTAGAATTTCCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGACTATCAAC

                                 * *     **            *                     
       3187 CTCCACTTGTCTCAAAGAATTCGGTCTATCGGATTGTCCTAATGTAAGTTCCATTCCAAATTTGG
         66 CTCCACTTGTCTCAAAGAATTAGATCTATATGATTGTCCTAATTTAAGTTCCATTCCAAATTTGG

                *               *                *     *                 *   
       3252 AAGGCTTTTCCTCTCTTCAATATCTGTCAATTGAGAGCTGCAAAAAATTGGGAGTTCTTCCAATA
        131 AAGGATTTTCCTCTCTTCAAAATCTGTCAATTGAGAGGTGCAAGAAATTGGGAGTTCTTCCGATA

                           
       3317 ACCGGAGGATGTTCA
        196 ACCGGAGGATGTTCA

                  *                 *                             *   *    * 
       3332 TCTCTTCAAAAGCTTA-AGATTTCTGGTTGCGAAAAATTAAGCAAGATTGGAGATGGATTATCTA
          1 TCTCTTGAAAAGCTTAGA-ATTTCCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGACTATCAA

                                           *                            *    
       3396 CCTCCACTTGTCTCAGAA-AATTAGATCTAAAAT-ATTGTCCTAATTTAAGTTCCATTCCGAATT
         65 CCTCCACTTGTCTCA-AAGAATTAGATCT-ATATGATTGTCCTAATTTAAGTTCCATTCCAAATT

                 *                                          *     *          
       3459 TGGAAAGATTTTCCTCTCTTCAAAATCTGTCAATTGAGAGGTGCAAGACATTGGAAGTTCTTCCG
        128 TGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGAGAGGTGCAAGAAATTGGGAGTTCTTCCG

                 *    *       
       3524 ATAACGGGAGAATGTTCA
        193 ATAACCGGAGGATGTTCA

                     *       *        *          *                   *  *    
       3542 TCTCTTGAAGAGCTTAGCATTAT-CGTTTGCGAAAAACTAAGCAAGATTGGAGACGGGCTGTCAA
          1 TCTCTTGAAAAGCTTAGAATT-TCCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGACTATCAA

                             *             *             *    *   *      *   
       3606 CCTCCACTTGTCTCAAAAAATTACGA-CTATGT-AGTTGTCCTAACTTAATTTCAATTCCGGAA-
         65 CCTCCACTTGTCTCAAAGAATTA-GATCTATATGA-TTGTCCTAATTTAAGTTCCATTCC-AAAT

                          *                                   *      *       
       3668 TTGGAAGGATTTTCTTCTCTTCAAAATCTGTCAATT-AGATGGTGC-AGCGAATTGGAAGTTCTT
        127 TTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGAGA-GGTGCAAG-AAATTGGGAGTTCTT

                                 
       3731 CCGATAACCGGAGGATGTTCA
        190 CCGATAACCGGAGGATGTTCA

                       *     *    *  *                *               *    * 
       3752 TCTCTTGAAAAACTTAGCATTTTCGATTGC-AAAAAGTTAAGTAAGATTGGAGACGGATTATCTA
          1 TCTCTTGAAAAGCTTAGAATTTCCGGTTGCGAAAAA-TTAAGCAAGATTGGAGACGGACTATCAA

                         *                *                      *           
       3816 CCTCCACTTGTCTTAAAGAATTAGATCTAAAATG-TTGTCCTAATTTAAGTTCGATTCCAAATTT
         65 CCTCCACTTGTCTCAAAGAATTAGATCT-ATATGATTGTCCTAATTTAAGTTCCATTCCAAATTT

                        *            
       3880 GGAAGGATTTTCGTCTCTTCAAAAT
        129 GGAAGGATTTTCCTCTCTTCAAAAT

       3905 GTATCCGTTG


Statistics
Matches: 863,  Mismatches: 113, Indels: 34
        0.85            0.11        0.03

Matches are distributed among these distances:
 209   20  0.02
 210  832  0.96
 211   11  0.01

ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Consensus pattern (210 bp):   
TCTCTTGAAAAGCTTAGAATTTCCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGACTATCAAC
CTCCACTTGTCTCAAAGAATTAGATCTATATGATTGTCCTAATTTAAGTTCCATTCCAAATTTGG
AAGGATTTTCCTCTCTTCAAAATCTGTCAATTGAGAGGTGCAAGAAATTGGGAGTTCTTCCGATA
ACCGGAGGATGTTCA

Found at i:4551 original size:144 final size:145

Alignment explanation


    Indices: 4300--4708  Score: 484
    Period size: 144  Copynumber: 2.8  Consensus size: 145

       4290 TTGGTTGGGA

                  *        *         *             *                         
       4300 AAAGCTTAAGAGTCTCCCTCACCAATTTCAACTCCTAACCACCCTTGAAGATTTGACGATTGAAA
          1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTGAAA

                 **  *                  *                        *   *       
       4365 GGTTTGGTGGAATAGAAGCCTTGCCAGACTGGTTGGGAAATCTCTCTTCTCTACGGCGTCTATAT
         66 GGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATAT

                           
       4430 TTGAGTGGTTTT-GG
        131 TTGAGTGGTTTTCGG

                                    *           *   *                *      *
       4444 AAAGCTAAAGAGTCTTCCTCACCAGCTTCAACTCCTCACTGCCCTTGAAGATTTGACTA-TGCAG
          1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTG-AA

            *                                                                
       4508 GGGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATA
         65 AGGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATA

                            
       4573 TTTGAGTGGTTTTCGG
        130 TTTGAGTGGTTTTCGG

                         *  *                   **           *    *     *    
       4589 -AAGCTAAAGAGTTTTACTCACCAACTTCAACTCCTTTCTACCCTTGAATATTTAACGATAG-AA
          1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTGAAA

                    * *     *          * * **  **                    
       4652 GAGTTTCAAGGAATAGGAGCCTTGCCACAGTCATTCAGAAATCTCTCTTCTCTAAGG
         66 G-GTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGG

       4709 AGGCTGTGTA


Statistics
Matches: 224,  Mismatches: 37, Indels: 8
        0.83            0.14        0.03

Matches are distributed among these distances:
 143    3  0.01
 144  218  0.97
 145    3  0.01

ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31


Consensus pattern (145 bp):   
AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTGAAA
GGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATAT
TTGAGTGGTTTTCGG
Done.