Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00424.C1

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: 3745
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34


Found at i:262 original size:12 final size:12

Alignment explanation


    Indices: 245--288  Score: 88
    Period size: 12  Copynumber: 3.7  Consensus size: 12

        235 AGGAGACCCA

                        
        245 TAGCATGGAGTG
          1 TAGCATGGAGTG

                        
        257 TAGCATGGAGTG
          1 TAGCATGGAGTG

                        
        269 TAGCATGGAGTG
          1 TAGCATGGAGTG

                    
        281 TAGCATGG
          1 TAGCATGG

        289 TTCTTGGTCA


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   32  1.00

ACGTcount: A:0.25, C:0.09, G:0.41, T:0.25


Consensus pattern (12 bp):   
TAGCATGGAGTG

Found at i:3119 original size:199 final size:199

Alignment explanation


    Indices: 2779--3173  Score: 754
    Period size: 199  Copynumber: 2.0  Consensus size: 199

       2769 TGCAGAACTT

                                                                             
       2779 GATTTTCTTGCAACCATTATTCTAGGTTAGGCAAGATTACTGAAGCCTTTCTCTTTGGACGAGGA
          1 GATTTTCTTGCAACCATTATTCTAGGTTAGGCAAGATTACTGAAGCCTTTCTCTTTGGACGAGGA

                                         *                                   
       2844 TGATGACTACTATAGCTCTAAAGTCAATCTGTAATTTTGTTGACCTTGGTGGGAATCCTGTATTA
         66 TGATGACTACTATAGCTCTAAAGTCAATCCGTAATTTTGTTGACCTTGGTGGGAATCCTGTATTA

                                                                             
       2909 ACCTTTGGTTAAAGGCATAATGTTGTCAAAGGACAAGCTAATGGACAAGGCCCATAGCACGGACT
        131 ACCTTTGGTTAAAGGCATAATGTTGTCAAAGGACAAGCTAATGGACAAGGCCCATAGCACGGACT

                
       2974 ACTC
        196 ACTC

                                                       *                     
       2978 GATTTTCTTGCAACCATTATTCTAGGTTAGGCAAGATTACTGATGCCTTTCTCTTTGGACGAGGA
          1 GATTTTCTTGCAACCATTATTCTAGGTTAGGCAAGATTACTGAAGCCTTTCTCTTTGGACGAGGA

                                                                             
       3043 TGATGACTACTATAGCTCTAAAGTCAATCCGTAATTTTGTTGACCTTGGTGGGAATCCTGTATTA
         66 TGATGACTACTATAGCTCTAAAGTCAATCCGTAATTTTGTTGACCTTGGTGGGAATCCTGTATTA

                                             *            *                  
       3108 ACCTTTGGTTAAAGGCATAATGTTGTCAAAGGAGAAGCTAATGGACGAGGCCCATAGCACGGACT
        131 ACCTTTGGTTAAAGGCATAATGTTGTCAAAGGACAAGCTAATGGACAAGGCCCATAGCACGGACT

             
       3173 A
        196 A

       3174 TAGCTTGGTT


Statistics
Matches: 192,  Mismatches: 4, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
 199  192  1.00

ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32


Consensus pattern (199 bp):   
GATTTTCTTGCAACCATTATTCTAGGTTAGGCAAGATTACTGAAGCCTTTCTCTTTGGACGAGGA
TGATGACTACTATAGCTCTAAAGTCAATCCGTAATTTTGTTGACCTTGGTGGGAATCCTGTATTA
ACCTTTGGTTAAAGGCATAATGTTGTCAAAGGACAAGCTAATGGACAAGGCCCATAGCACGGACT
ACTC
Done.