Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Cotton_A_31458

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: 2823
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28


Found at i:1064 original size:3 final size:3

Alignment explanation


    Indices: 1050--1084  Score: 52
    Period size: 3  Copynumber: 11.7  Consensus size: 3

       1040 AGACTAGTGT

                  *               *                       
       1050 TGA TGC TGA TGA TGA TGC TGA TGA TGA TGA TGA TG
          1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG

       1085 GATGGGAATT


Statistics
Matches: 28,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
   3   28  1.00

ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34


Consensus pattern (3 bp):   
TGA

Found at i:1067 original size:12 final size:12

Alignment explanation


    Indices: 1050--1084  Score: 61
    Period size: 12  Copynumber: 2.9  Consensus size: 12

       1040 AGACTAGTGT

                        
       1050 TGATGCTGATGA
          1 TGATGCTGATGA

                        
       1062 TGATGCTGATGA
          1 TGATGCTGATGA

                 *     
       1074 TGATGATGATG
          1 TGATGCTGATG

       1085 GATGGGAATT


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  12   22  1.00

ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34


Consensus pattern (12 bp):   
TGATGCTGATGA

Done.