Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2094

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, 664

Length: 1107
ACGTcount: A:0.28, C:0.09, G:0.05, T:0.25

Warning! 365 characters in sequence are not A, C, G, or T


Found at i:664 original size:27 final size:28

Alignment explanation


    Indices: 634--700  Score: 100
    Period size: 28  Copynumber: 2.4  Consensus size: 28

        624 TTTTTTTGGT

                                  *     
        634 ATATTTTGGTTAAT-AAAAAAATTTATA
          1 ATATTTTGGTTAATAAAAAAAAGTTATA

                    * *                 
        661 ATATTTTGATAAATAAAAAAAAGTTATA
          1 ATATTTTGGTTAATAAAAAAAAGTTATA

                        
        689 ATATTTTGGTTA
          1 ATATTTTGGTTA

        701 TTTTTTATTT


Statistics
Matches: 34,  Mismatches: 5, Indels: 1
        0.85            0.12        0.03

Matches are distributed among these distances:
  27   12  0.35
  28   22  0.65

ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43


Consensus pattern (28 bp):   
ATATTTTGGTTAATAAAAAAAAGTTATA

Found at i:1029 original size:37 final size:37

Alignment explanation


    Indices: 963--1038  Score: 107
    Period size: 37  Copynumber: 2.1  Consensus size: 37

        953 CAGGACACTT

                                              *  
        963 CATAACTTATATAATATTAAGATAAAATTTCTAATTA
          1 CATAACTTATATAATATTAAGATAAAATTTCTAAGTA

                                ** **            
       1000 CATAACTTATATAATATTAATTTCTAATTTCTAAGTA
          1 CATAACTTATATAATATTAAGATAAAATTTCTAAGTA

              
       1037 CA
          1 CA

       1039 CATCAATTTC


Statistics
Matches: 34,  Mismatches: 5, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  37   34  1.00

ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42


Consensus pattern (37 bp):   
CATAACTTATATAATATTAAGATAAAATTTCTAAGTA
Done.