Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_40023

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: 1895
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27


Found at i:310 original size:48 final size:48

Alignment explanation


    Indices: 211--310  Score: 164
    Period size: 48  Copynumber: 2.1  Consensus size: 48

        201 GAGAGCTGTA

                                                     **     
        211 AGAATGTGAATGACAATAACATATTGCAAACATCAAATAGCTTGTCAG
          1 AGAATGTGAATGACAATAACATATTGCAAACATCAAATAGCCGGTCAG

                                *                         * 
        259 AGAATGTGAATGACAATAACGTATTGCAAACATCAAATAGCCGGTCTG
          1 AGAATGTGAATGACAATAACATATTGCAAACATCAAATAGCCGGTCAG

                
        307 AGAA
          1 AGAA

        311 AGAGTCCCAT


Statistics
Matches: 48,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  48   48  1.00

ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23


Consensus pattern (48 bp):   
AGAATGTGAATGACAATAACATATTGCAAACATCAAATAGCCGGTCAG
Done.