Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_191 ID=scaffold_191-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: 15115
ACGTcount: A:0.21, C:0.10, G:0.11, T:0.21

Warning! 5469 characters in sequence are not A, C, G, or T


Found at i:3732 original size:26 final size:26

Alignment explanation


    Indices: 3703--3752  Score: 82
    Period size: 26  Copynumber: 1.9  Consensus size: 26

       3693 AATAAAAGAA

                          *  *        
       3703 AACATTCAATATTTTAGTTTAATTAG
          1 AACATTCAATATTTAAGCTTAATTAG

                                    
       3729 AACATTCAATATTTAAGCTTAATT
          1 AACATTCAATATTTAAGCTTAATT

       3753 TGCATTAATT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  26   22  1.00

ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44


Consensus pattern (26 bp):   
AACATTCAATATTTAAGCTTAATTAG

Found at i:5844 original size:26 final size:26

Alignment explanation


    Indices: 5815--5864  Score: 100
    Period size: 26  Copynumber: 1.9  Consensus size: 26

       5805 AATAAAAGAA

                                      
       5815 AACATTCAATATTTCAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

                                    
       5841 AACATTCAATATTTCAGTTTAATT
          1 AACATTCAATATTTCAGTTTAATT

       5865 TGCATTAATT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   24  1.00

ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44


Consensus pattern (26 bp):   
AACATTCAATATTTCAGTTTAATTAG

Found at i:7803 original size:26 final size:26

Alignment explanation


    Indices: 7770--7819  Score: 82
    Period size: 26  Copynumber: 1.9  Consensus size: 26

       7760 AATAATAGAA

                         *  *         
       7770 AACATTCAATATTTCAGTTTAATTAG
          1 AACATTCAATATTACAATTTAATTAG

                                    
       7796 AACATTCAATATTACAATTTAATT
          1 AACATTCAATATTACAATTTAATT

       7820 TGTATTAATT


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  26   22  1.00

ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42


Consensus pattern (26 bp):   
AACATTCAATATTACAATTTAATTAG

Found at i:10417 original size:26 final size:26

Alignment explanation


    Indices: 10384--10433  Score: 100
    Period size: 26  Copynumber: 1.9  Consensus size: 26

      10374 AATAATAGAA

                                      
      10384 AACATTCAATATTTCAGTTTAATTAG
          1 AACATTCAATATTTCAGTTTAATTAG

                                    
      10410 AACATTCAATATTTCAGTTTAATT
          1 AACATTCAATATTTCAGTTTAATT

      10434 TGTATTAATT


Statistics
Matches: 24,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  26   24  1.00

ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44


Consensus pattern (26 bp):   
AACATTCAATATTTCAGTTTAATTAG
Done.