Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01097.M1

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: 3924
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31


Found at i:3692 original size:23 final size:23

Alignment explanation


    Indices: 3666--3709  Score: 79
    Period size: 23  Copynumber: 1.9  Consensus size: 23

       3656 CTAATTAGGC

                                   
       3666 TTACTTCGGATTTGAATTTTTGT
          1 TTACTTCGGATTTGAATTTTTGT

                  *              
       3689 TTACTTTGGATTTGAATTTTT
          1 TTACTTCGGATTTGAATTTTT

       3710 TCAAAGGTCT


Statistics
Matches: 20,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  23   20  1.00

ACGTcount: A:0.18, C:0.07, G:0.16, T:0.59


Consensus pattern (23 bp):   
TTACTTCGGATTTGAATTTTTGT

Found at i:3787 original size:15 final size:15

Alignment explanation


    Indices: 3767--3799  Score: 66
    Period size: 15  Copynumber: 2.2  Consensus size: 15

       3757 CTCGGGACCT

                           
       3767 TTTGGATTCAGATTA
          1 TTTGGATTCAGATTA

                           
       3782 TTTGGATTCAGATTA
          1 TTTGGATTCAGATTA

               
       3797 TTT
          1 TTT

       3800 CAAGCTCGAA


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

Matches are distributed among these distances:
  15   18  1.00

ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52


Consensus pattern (15 bp):   
TTTGGATTCAGATTA

Found at i:3828 original size:22 final size:22

Alignment explanation


    Indices: 3787--3835  Score: 62
    Period size: 22  Copynumber: 2.2  Consensus size: 22

       3777 GATTATTTGG

                    *           * 
       3787 ATTCAGATTATTTCAAGCTCGA
          1 ATTCAGATCATTTCAAGCTCAA

                          **      
       3809 ATTCAGATCATTTCGGGCTCAA
          1 ATTCAGATCATTTCAAGCTCAA

                 
       3831 ATTCA
          1 ATTCA

       3836 TTTAGATGGG


Statistics
Matches: 23,  Mismatches: 4, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  22   23  1.00

ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35


Consensus pattern (22 bp):   
ATTCAGATCATTTCAAGCTCAA
Done.