Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_37647

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, 891

Length: 1485
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28


Found at i:114 original size:3 final size:3

Alignment explanation


    Indices: 106--134  Score: 58
    Period size: 3  Copynumber: 9.7  Consensus size: 3

         96 TTATCAATCC

                                                  
        106 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
          1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CA

        135 ACAACAACAA


Statistics
Matches: 26,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   26  1.00

ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00


Consensus pattern (3 bp):   
CAG

Found at i:204 original size:15 final size:15

Alignment explanation


    Indices: 184--214  Score: 53
    Period size: 15  Copynumber: 2.1  Consensus size: 15

        174 ACAGCAGCAG

                           
        184 CAGCAGCAACAACAA
          1 CAGCAGCAACAACAA

                    *      
        199 CAGCAGCAGCAACAA
          1 CAGCAGCAACAACAA

             
        214 C
          1 C

        215 CCCTTTTTCT


Statistics
Matches: 15,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  15   15  1.00

ACGTcount: A:0.48, C:0.35, G:0.16, T:0.00


Consensus pattern (15 bp):   
CAGCAGCAACAACAA
Done.