Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_17150

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: 3396
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29


Found at i:3047 original size:144 final size:145

Alignment explanation


    Indices: 2796--3204  Score: 484
    Period size: 144  Copynumber: 2.8  Consensus size: 145

       2786 TTGGTTGGGA

                  *        *         *             *                         
       2796 AAAGCTTAAGAGTCTCCCTCACCAATTTCAACTCCTAACCACCCTTGAAGATTTGACGATTGAAA
          1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTGAAA

                 **  *                  *                        *   *       
       2861 GGTTTGGTGGAATAGAAGCCTTGCCAGACTGGTTGGGAAATCTCTCTTCTCTACGGCGTCTATAT
         66 GGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATAT

                           
       2926 TTGAGTGGTTTT-GG
        131 TTGAGTGGTTTTCGG

                                    *           *   *                *      *
       2940 AAAGCTAAAGAGTCTTCCTCACCAGCTTCAACTCCTCACTGCCCTTGAAGATTTGACTA-TGCAG
          1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTG-AA

            *                                                                
       3004 GGGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATA
         65 AGGTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGGCATCTATA

                            
       3069 TTTGAGTGGTTTTCGG
        130 TTTGAGTGGTTTTCGG

                         *  *                   **           *    *     *    
       3085 -AAGCTAAAGAGTTTTACTCACCAACTTCAACTCCTTTCTACCCTTGAATATTTAACGATAG-AA
          1 AAAGCTAAAGAGTCTTCCTCACCAACTTCAACTCCTAACTACCCTTGAAGATTTGACGATTGAAA

                    * *     *          * * **  **                    
       3148 GAGTTTCAAGGAATAGGAGCCTTGCCACAGTCATTCAGAAATCTCTCTTCTCTAAGG
         66 G-GTTTCATGAAATAGAAGCCTTGCCAGAATGGTTGGGAAATCTCTCTTCTCTAAGG

       3205 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.