Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_23582

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, 855

Length: 1425
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24


Found at i:772 original size:45 final size:45

Alignment explanation


    Indices: 733--827  Score: 181
    Period size: 45  Copynumber: 2.1  Consensus size: 45

        723 AGAAGATGAT

                       *                                 
        733 GAAGAATATCCTTTGATGGAATCATTACATCCAGCAGAAGAAAAC
          1 GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC

                                                         
        778 GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC
          1 GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC

                 
        823 GAAGA
          1 GAAGA

        828 TGAAGAAGAA


Statistics
Matches: 49,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  45   49  1.00

ACGTcount: A:0.44, C:0.17, G:0.19, T:0.20


Consensus pattern (45 bp):   
GAAGAATATCCATTGATGGAATCATTACATCCAGCAGAAGAAAAC

Found at i:890 original size:3 final size:3

Alignment explanation


    Indices: 882--922  Score: 55
    Period size: 3  Copynumber: 13.7  Consensus size: 3

        872 ATAACCGAAT

                            *   *   *                             
        882 TGA TGA TGA TGA AGA AGA AGA TGA TGA TGA TGA TGA TGA TG
          1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG

        923 GAGAGTATTC


Statistics
Matches: 36,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   3   36  1.00

ACGTcount: A:0.39, C:0.00, G:0.34, T:0.27


Consensus pattern (3 bp):   
TGA

Done.