Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_34682

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: 1767
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35


Found at i:1395 original size:75 final size:74

Alignment explanation


    Indices: 1235--1398  Score: 175
    Period size: 75  Copynumber: 2.2  Consensus size: 74

       1225 AATCTTACTG

                                        *                *    *        *  *  
       1235 AACTTGATCTTTCATCAAATAATTTTAATGGTGTAATCAACTCAGTTATGTTTTCAAAGTTAGAG
          1 AACTTGATCTTTCATCAAATAATTTTAACGGTGTAATCAACTCAGATATGCTTTCAAAGCTAAAG

              *    * 
       1300 AATCTTTTA
         66 AAGCTTTGA

                                  *     *      *     * *    *                
       1309 ACACTTGATCTTTCATCAAATAGTTTTAGCGGTGTCATCAAGTTAGATGTGCTTTCAAAGCTAAA
          1 A-ACTTGATCTTTCATCAAATAATTTTAACGGTGTAATCAACTCAGATATGCTTTCAAAGCTAAA

              *        
       1374 GAGGCTTATGA
         65 GAAGCTT-TGA

                 *        
       1385 AACTTAATCTTTCA
          1 AACTTGATCTTTCA

       1399 AACAACACAT


Statistics
Matches: 73,  Mismatches: 15, Indels: 3
        0.80            0.16        0.03

Matches are distributed among these distances:
  74    1  0.01
  75   69  0.95
  76    3  0.04

ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38


Consensus pattern (74 bp):   
AACTTGATCTTTCATCAAATAATTTTAACGGTGTAATCAACTCAGATATGCTTTCAAAGCTAAAG
AAGCTTTGA
Done.