Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold2064

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, 674

Length: 1124
ACGTcount: A:0.27, C:0.16, G:0.07, T:0.28

Warning! 243 characters in sequence are not A, C, G, or T


Found at i:617 original size:9 final size:9

Alignment explanation


    Indices: 603--702  Score: 146
    Period size: 9  Copynumber: 10.9  Consensus size: 9

        593 TTTGGTTAAA

                   * 
        603 AATTACCTG
          1 AATTACCCG

                     
        612 AATTACCCG
          1 AATTACCCG

                     
        621 AATTACCCG
          1 AATTACCCG

             *       
        630 ACTTACCCG
          1 AATTACCCG

                     
        639 AATTACCCG
          1 AATTACCCG

             *       
        648 ACTTACCCG
          1 AATTACCCG

                     
        657 AATTACCCG
          1 AATTACCCG

                     
        666 AATTACCCG
          1 AATTACCCG

                     
        675 AATTACCCG
          1 AATTACCCG

                      *
        684 AAAATTACCCA
          1 --AATTACCCG

                    
        695 AATTACCC
          1 AATTACCC

        703 NNNNNNNNNN


Statistics
Matches: 83,  Mismatches: 6, Indels: 4
        0.89            0.06        0.04

Matches are distributed among these distances:
   9   75  0.90
  11    8  0.10

ACGTcount: A:0.34, C:0.34, G:0.09, T:0.23


Consensus pattern (9 bp):   
AATTACCCG

Found at i:947 original size:24 final size:24

Alignment explanation


    Indices: 920--978  Score: 100
    Period size: 24  Copynumber: 2.5  Consensus size: 24

        910 ATTCTCCATT

                            *       
        920 TATATCCATTTCATCTTTCCAAAA
          1 TATATCCATTTCATCTCTCCAAAA

                                    
        944 TATATCCATTTCATCTCTCCAAAA
          1 TATATCCATTTCATCTCTCCAAAA

               *       
        968 TATCTCCATTT
          1 TATATCCATTT

        979 GCATTAAACC


Statistics
Matches: 33,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  24   33  1.00

ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42


Consensus pattern (24 bp):   
TATATCCATTTCATCTCTCCAAAA
Done.