Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold3493

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, 442

Length: 737
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.34

Warning! 28 characters in sequence are not A, C, G, or T


Found at i:676 original size:26 final size:28

Alignment explanation


    Indices: 639--692  Score: 76
    Period size: 26  Copynumber: 2.0  Consensus size: 28

        629 AGCATAGAAG

                                        
        639 TATATAAATAAAAAAATTT-AAATATAT
          1 TATATAAATAAAAAAATTTAAAATATAT

                         **             
        666 TATA-AAATAAAATTATTTAAAATATAT
          1 TATATAAATAAAAAAATTTAAAATATAT

        693 AGACAATATT


Statistics
Matches: 24,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  26   12  0.50
  27   12  0.50

ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39


Consensus pattern (28 bp):   
TATATAAATAAAAAAATTTAAAATATAT

Found at i:688 original size:15 final size:17

Alignment explanation


    Indices: 658--689  Score: 50
    Period size: 15  Copynumber: 2.0  Consensus size: 17

        648 AAAAAAATTT

                             
        658 AAATATATTATAAAATA
          1 AAATATATTATAAAATA

                             
        675 AAAT-TATT-TAAAATA
          1 AAATATATTATAAAATA

        690 TATAGACAAT


Statistics
Matches: 15,  Mismatches: 0, Indels: 2
        0.88            0.00        0.12

Matches are distributed among these distances:
  15    7  0.47
  16    4  0.27
  17    4  0.27

ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38


Consensus pattern (17 bp):   
AAATATATTATAAAATA

Done.