Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00629.F3

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: 4350
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31


Found at i:2559 original size:210 final size:210

Alignment explanation


    Indices: 2191--2596  Score: 553
    Period size: 210  Copynumber: 1.9  Consensus size: 210

       2181 AGGCTTAAGC

                       **  *                             *                   
       2191 TTTTGAATTTAGGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAGAATTGGAATGGAATCCCTT
          1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCCCTT

                *                            *     *                *        
       2256 GAAATGTTAACTCTTTCAGGTTGCTCAAAACTTCAAAGCTTTCCAGAGATTGATGGGAAAATGGA
         66 GAAAAGTTAACTCTTTCAGGTTGCTCAAAACTTAAAAGCGTTCCAGAGATTGATGGAAAAATGGA

               **  ***   *   *   *                                           
       2321 ATGTTTGTTGGAGGTTTGTTTTGATGGGACAAACATTAAAGAGCTACCT-TCTTCAATCGGAAAT
        131 ATGCCTGCAAGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTAT-TTCAATCGGAAAT

                            
       2385 CTCAGAAGACTTGAAG
        195 CTCAGAAGACTTGAAG

                               *                                         *   
       2401 TTTTGAATTTAAAAGACTGTAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCTCTT
          1 TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCCCTT

                      *            *  *  *        *                          
       2466 GAAAAGTTAATTCTTTCAGGTTGTTCCAATCTTAAAAGGGTTCCAGAGATTGATGGAAAAATGGA
         66 GAAAAGTTAACTCTTTCAGGTTGCTCAAAACTTAAAAGCGTTCCAGAGATTGATGGAAAAATGGA

                                          ***                        *       
       2531 ATGCCTGCAAGAGCTTTATTTAGATGGGACGGGCATTAAAGAGCTACCTATTTCAATTGGAAATC
        131 ATGCCTGCAAGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTATTTCAATCGGAAATC

             
       2596 T
        196 T

       2597 GAGCAGTCTT


Statistics
Matches: 168,  Mismatches: 27, Indels: 2
        0.85            0.14        0.01

Matches are distributed among these distances:
 210  167  0.99
 211    1  0.01

ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31


Consensus pattern (210 bp):   
TTTTGAATTTAAAAGACTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAATGGAATCCCTT
GAAAAGTTAACTCTTTCAGGTTGCTCAAAACTTAAAAGCGTTCCAGAGATTGATGGAAAAATGGA
ATGCCTGCAAGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTATTTCAATCGGAAATC
TCAGAAGACTTGAAG
Done.