Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold1717

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: 26165
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.31


Found at i:21017 original size:27 final size:27

Alignment explanation


    Indices: 20984--21207  Score: 257
    Period size: 27  Copynumber: 8.6  Consensus size: 27

      20974 TAAATTGTAC

                                       
      20984 AGCACTAAGTGTGCGATTTGACTATGT
          1 AGCACTAAGTGTGCGATTTGACTATGT

                                       
      21011 AGCACTAA-TGTGCGATTTGACTATGT
          1 AGCACTAAGTGTGCGATTTGACTATGT

                                       
      21037 -GCACTAAGTGTGCGA--TGACTA--T
          1 AGCACTAAGTGTGCGATTTGACTATGT

                            **   *     
      21059 -GCACTAAGTGTGCGAAATGAATATG-
          1 AGCACTAAGTGTGCGATTTGACTATGT

                             *     *   *
      21084 ATGCACTAAGTGTGCGAATTGACCATGC
          1 A-GCACTAAGTGTGCGATTTGACTATGT

            *               *          
      21112 GGCACTAAGTGTGCGAGTTGACTATGT
          1 AGCACTAAGTGTGCGATTTGACTATGT

                                 *  *  
      21139 AGCACTAAGTGTGCGATTTGATTACGT
          1 AGCACTAAGTGTGCGATTTGACTATGT

                            *    *   * 
      21166 AGCACTAAGTGTGCGAGTTGATTATAT
          1 AGCACTAAGTGTGCGATTTGACTATGT

                  *        
      21193 AGCACTGAGTGTGCG
          1 AGCACTAAGTGTGCG

      21208 GACTCAATAT


Statistics
Matches: 173,  Mismatches: 16, Indels: 16
        0.84            0.08        0.08

Matches are distributed among these distances:
  22   16  0.09
  24   11  0.06
  25    7  0.04
  26   25  0.14
  27  114  0.66

ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29


Consensus pattern (27 bp):   
AGCACTAAGTGTGCGATTTGACTATGT

Done.