Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_30534

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, 613

Length: 1023
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24


Found at i:849 original size:69 final size:69

Alignment explanation


    Indices: 738--868  Score: 192
    Period size: 69  Copynumber: 1.9  Consensus size: 69

        728 CCAGTGGTCA

                         *          *           *                *           
        738 GGAGACTGAAGTTGAACCTCCTCCGGGGTTTCCAGATAAGCGGCGAGGGAG-TGAAAGAAATGAT
          1 GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGG-GCTCAAAGAAATGAT

                 
        802 GGACG
         65 GGACG

                 *          *                                             
        807 GGAGAGTGAAGTTAAAGCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATG
          1 GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATG

        869 GAGGTACTAT


Statistics
Matches: 55,  Mismatches: 6, Indels: 2
        0.87            0.10        0.03

Matches are distributed among these distances:
  68    1  0.02
  69   54  0.98

ACGTcount: A:0.31, C:0.18, G:0.35, T:0.17


Consensus pattern (69 bp):   
GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATGATG
GACG
Done.