Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_21858

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, 466

Length: 777
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25


Found at i:608 original size:84 final size:84

Alignment explanation


    Indices: 390--600  Score: 269
    Period size: 84  Copynumber: 2.5  Consensus size: 84

        380 CCTCGGCCTC

                  *  *             *    * *     *      * *     *     *       
        390 TCCAGCTCCGGAAACTTCTCCCTCGCCAGCCGAAACTCCGGAATTGGCTCCGGAAACTTCGCCTT
          1 TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT

              *                
        455 CTTTCCCACCATCCGTGTA
         66 CTCTCCCACCATCCGTGTA

                  *               *      **                                  
        474 TCCAGCTCCCGAAACTTCTCCCATGCCAATGGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT
          1 TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT

                               
        539 CTCTCCCACCATCCGTGTA
         66 CTCTCCCACCATCCGTGTA

              **                                       
        558 TCTGGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAA
          1 TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAA

        601 GCAGCTCCTG


Statistics
Matches: 109,  Mismatches: 18, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  84  109  1.00

ACGTcount: A:0.23, C:0.40, G:0.16, T:0.21


Consensus pattern (84 bp):   
TCCAGCCCCCGAAACTTCTCCCTTGCCAACAGAAACCCCGGAAATAGCTCCAGAAACCTCGCCTT
CTCTCCCACCATCCGTGTA

Done.