Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g02267.F2

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: 2314
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26


Found at i:849 original size:24 final size:25

Alignment explanation


    Indices: 822--873  Score: 72
    Period size: 24  Copynumber: 2.2  Consensus size: 25

        812 CTAAAAAAAT

                         *           
        822 AGAAAT-AGAAACGAATAGTAATAC
          1 AGAAATCAGAAACAAATAGTAATAC

                   *                 
        846 AG-AATCGGAAACAAATAGTAATAC
          1 AGAAATCAGAAACAAATAGTAATAC

                
        870 AGAA
          1 AGAA

        874 TCTGATAAAC


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  23    3  0.12
  24   20  0.83
  25    1  0.04

ACGTcount: A:0.58, C:0.10, G:0.17, T:0.15


Consensus pattern (25 bp):   
AGAAATCAGAAACAAATAGTAATAC

Found at i:874 original size:24 final size:26

Alignment explanation


    Indices: 828--889  Score: 92
    Period size: 24  Copynumber: 2.5  Consensus size: 26

        818 AAATAGAAAT

                  *                   
        828 AGAAACGAATAGTAATACAGAATC-G
          1 AGAAACAAATAGTAATACAGAATCTG

                                      
        853 -GAAACAAATAGTAATACAGAATCTG
          1 AGAAACAAATAGTAATACAGAATCTG

             *          
        878 ATAAACAAATAG
          1 AGAAACAAATAG

        890 AAACAAATAA


Statistics
Matches: 33,  Mismatches: 2, Indels: 3
        0.87            0.05        0.08

Matches are distributed among these distances:
  24   22  0.67
  25    1  0.03
  26   10  0.30

ACGTcount: A:0.55, C:0.11, G:0.16, T:0.18


Consensus pattern (26 bp):   
AGAAACAAATAGTAATACAGAATCTG

Found at i:1985 original size:105 final size:106

Alignment explanation


    Indices: 1796--2116  Score: 428
    Period size: 105  Copynumber: 3.0  Consensus size: 106

       1786 TAGTAATTCC

                        *         *                                      *   
       1796 ATCACACTTTGACTGGCATGAGTACGGGCTAGGATACAGCTGTGTGCCTCACATCCAATGCCCAC
          1 ATCACACTTTGAATGGCATGAGCACGGGCTAGG--ACAGCTGTGTGCCTCACATCCAATGCTCAC

              * *    *                                 
       1861 ACAGTTTACGACACGGGCATGTCACTTGGCCATGTGTGCCACA
         64 ACGGCTTACAACACGGGCATGTCACTTGGCCATGTGTGCCACA

                        *           *   *         *             *            
       1904 ATCACACTTTGATTGGCATGAGCATGGGTTAGGACA-CAGTGTGCCTCACATTCAATGCTCACAC
          1 ATCACACTTTGAATGGCATGAGCACGGGCTAGGACAGCTGTGTGCCTCACATCCAATGCTCACAC

                       **                        *   
       1968 GGCTTACAACATAGGCATGTCACTTGGCCATGTGTGCAACA
         66 GGCTTACAACACGGGCATGTCACTTGGCCATGTGTGCCACA

                                     *    *                               *  
       2009 ATCACACTTTGAATGGCATGAGCACAGGCTGGGACATAGCTGTGTGCCTCACATCCAATGCTTAC
          1 ATCACACTTTGAATGGCATGAGCACGGGCTAGGAC--AGCTGTGTGCCTCACATCCAATGCTCAC

                *                   *                  
       2074 ACGGGTTACAACACGGGCATGTCAATTGGCCATGTGTGCCACA
         64 ACGGCTTACAACACGGGCATGTCACTTGGCCATGTGTGCCACA

       2117 CGGCCTGGCC


Statistics
Matches: 184,  Mismatches: 26, Indels: 6
        0.85            0.12        0.03

Matches are distributed among these distances:
 105   90  0.49
 106    3  0.02
 107    1  0.01
 108   90  0.49

ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24


Consensus pattern (106 bp):   
ATCACACTTTGAATGGCATGAGCACGGGCTAGGACAGCTGTGTGCCTCACATCCAATGCTCACAC
GGCTTACAACACGGGCATGTCACTTGGCCATGTGTGCCACA

Done.