Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_01171

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: 3416
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29


Found at i:2270 original size:75 final size:75

Alignment explanation


    Indices: 2191--2366  Score: 253
    Period size: 75  Copynumber: 2.3  Consensus size: 75

       2181 TTGTGCCAGT

                         *                                       * *         
       2191 CTCCCCCTCCCCCACCACCACTCCCTCCATCCTCAGCTACATCTCCATCTTCTTCTGTAAAGAAT
          1 CTCCCCCTCCCCCTCCACCACTCCCTCCATCCTCAGCTACATCTCCATCTTCTACCGTAAAGAAT

              * *     
       2256 TCGTTTTCAG
         66 TCATCTTCAG

                            *             *        *                     *   
       2266 CTCCCCCTCCCCCTCCCCCACTCCCTCCATTCTCAGCTATATCTCCATCTTCTACCGTAAATAAT
          1 CTCCCCCTCCCCCTCCACCACTCCCTCCATCCTCAGCTACATCTCCATCTTCTACCGTAAAGAAT

                      
       2331 TCATCTTCAG
         66 TCATCTTCAG

              *       *               
       2341 CTTCCCCTCCTCCTCCACCACTCCCT
          1 CTCCCCCTCCCCCTCCACCACTCCCT

       2367 AACGTGGCTT


Statistics
Matches: 89,  Mismatches: 12, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  75   89  1.00

ACGTcount: A:0.17, C:0.49, G:0.05, T:0.30


Consensus pattern (75 bp):   
CTCCCCCTCCCCCTCCACCACTCCCTCCATCCTCAGCTACATCTCCATCTTCTACCGTAAAGAAT
TCATCTTCAG
Done.