Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_577 ID=scaffold_577-JGI_221_v2.0

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: 7218
ACGTcount: A:0.24, C:0.12, G:0.14, T:0.27

Warning! 1677 characters in sequence are not A, C, G, or T


Found at i:5542 original size:28 final size:28

Alignment explanation


    Indices: 5510--5564  Score: 101
    Period size: 28  Copynumber: 2.0  Consensus size: 28

       5500 TTCTAAGACA

                                        
       5510 TTACTTACAAGTCAAGTTAAACAAAATC
          1 TTACTTACAAGTCAAGTTAAACAAAATC

                  *                    
       5538 TTACTTGCAAGTCAAGTTAAACAAAAT
          1 TTACTTACAAGTCAAGTTAAACAAAAT

       5565 ATATTTTCTT


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  28   26  1.00

ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29


Consensus pattern (28 bp):   
TTACTTACAAGTCAAGTTAAACAAAATC

Found at i:6150 original size:6 final size:7

Alignment explanation


    Indices: 6135--6159  Score: 50
    Period size: 7  Copynumber: 3.6  Consensus size: 7

       6125 ATTACGTAAA

                   
       6135 TTTTCTT
          1 TTTTCTT

                   
       6142 TTTTCTT
          1 TTTTCTT

                   
       6149 TTTTCTT
          1 TTTTCTT

                
       6156 TTTT
          1 TTTT

       6160 GACATCTACA


Statistics
Matches: 18,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   7   18  1.00

ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88


Consensus pattern (7 bp):   
TTTTCTT
Done.