Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_24593

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: 2686
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23


Found at i:2368 original size:192 final size:192

Alignment explanation


    Indices: 2041--2606  Score: 970
    Period size: 192  Copynumber: 2.9  Consensus size: 192

       2031 CGCCACAAGT

                                 *                                           
       2041 GGATGATCAGGGTAGTCTGGATCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA
          1 GGATGATCAGGGTAGTCTGGACCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA

              * * *          *    *     *        *                           
       2106 TGACAAGTTCTGAGCAAGCAAGCGAGCAAATTAGATTATCTGTATCTCGTAGAGAAGCAAGGGAG
         66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGGAG

                                               *                          
       2171 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTGGGAAACTCCATTAAGCAACAGGTGGC
        131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGGAAACTCCATTAAGCAACAGGTGGC

                                          *                       *          
       2233 GGATGATCAGGGTAGTCTGGACCAAATTTTAGTTAAACACAAATCAAAATTAGAAAAAGAGAAGA
          1 GGATGATCAGGGTAGTCTGGACCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA

                                                                 *           
       2298 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGACAAGCAAGGGAG
         66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGGAG

                                      *                                   
       2363 AGAGAGTTGCAAGAAGCATGGGGCGGTTTAAGCTTAGGAAACTCCATTAAGCAACAGGTGGC
        131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGGAAACTCCATTAAGCAACAGGTGGC

                    *                                                        
       2425 GGATGATCGGGGTAGTCTGGACCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA
          1 GGATGATCAGGGTAGTCTGGACCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA

                                                     *                       
       2490 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTCTATCTCGTAGAGAAGCAAGGGAG
         66 TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGGAG

                                   *   *  *                     
       2555 AGAGAGTTGCAAGAAGCATGGGGAGGCCTAGGCTTAGGAAACTCCATTAAGC
        131 AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGGAAACTCCATTAAGC

       2607 CACATTTATC


Statistics
Matches: 352,  Mismatches: 22, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
 192  352  1.00

ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21


Consensus pattern (192 bp):   
GGATGATCAGGGTAGTCTGGACCAAATTTTGGTTAAACACAAATCAAAATTAGAGAAAGAGAAGA
TGGCTACTTCTGAGCAACCAAGTGAGCAGATTAGATTCTCTGTATCTCGTAGAGAAGCAAGGGAG
AGAGAGTTGCAAGAAGCATGGGGCGGCTTAAGCTTAGGAAACTCCATTAAGCAACAGGTGGC
Done.