Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3635

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, 422

Length: 704
ACGTcount: A:0.16, C:0.12, G:0.19, T:0.24

Warning! 202 characters in sequence are not A, C, G, or T


Found at i:44 original size:22 final size:21

Alignment explanation


    Indices: 1--90  Score: 146
    Period size: 21  Copynumber: 4.3  Consensus size: 21

                                 
          1 AGTTAAGGTTTAGGGTTTTTA
          1 AGTTAAGGTTTAGGGTTTTTA

                                  
         22 AGTTAAGGTTTAGGGTTTTTTA
          1 AGTTAAGGTTTAGGG-TTTTTA

                                 
         44 AGTTAAGGTTTAGGGTTTTTA
          1 AGTTAAGGTTTAGGGTTTTTA

                       *  *      
         65 AGTTAAGGTTTTGGATTTTTA
          1 AGTTAAGGTTTAGGGTTTTTA

                  
         86 A-TTAA
          1 AGTTAA

         91 ATTAGGTTAG


Statistics
Matches: 66,  Mismatches: 2, Indels: 3
        0.93            0.03        0.04

Matches are distributed among these distances:
  20    4  0.06
  21   41  0.62
  22   21  0.32

ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49


Consensus pattern (21 bp):   
AGTTAAGGTTTAGGGTTTTTA

Found at i:62 original size:43 final size:43

Alignment explanation


    Indices: 1--84  Score: 150
    Period size: 43  Copynumber: 2.0  Consensus size: 43

                                               *       
          1 AGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTTTTTA
          1 AGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGATTTTTTA

                                            *        
         44 AGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTTGGATTTTT
          1 AGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGATTTTT

         85 AATTAAATTA


Statistics
Matches: 39,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  43   39  1.00

ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50


Consensus pattern (43 bp):   
AGTTAAGGTTTAGGGTTTTTAAGTTAAGGTTTAGGATTTTTTA
Done.