Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g00624.F1

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: 4407
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32


Found at i:2566 original size:210 final size:209

Alignment explanation


    Indices: 2188--2810  Score: 899
    Period size: 210  Copynumber: 3.0  Consensus size: 209

       2178 AGTTCTTACG

                                  *  *            *      *                   
       2188 AGGCTTAAGCTTTTGAATTTAAGAGGCTGCAAAAGTCTGAGGAGTTTTCCAACCAAAATTGGAAT
          1 AGGCTTAAG-TTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT

                          *                                                  
       2253 GGAATCTCTTGAAATGTTAATTCTTTCAGGTTGCTCAAAAT-TTCAAAGCTTTCCAGAGATTGAT
         65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTC-AAATCTTCAAAGCTTTCCAGAGATTGAT

                                        *   *           *                    
       2317 GGGAAAATGGAATGTTTGCTGGAGCTTTGTTTTGATGGGACAAAAATTAAAGAGCTACCTTCTTC
        129 GGGAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTC

                            
       2382 AATCGGAAATCTCAGA
        194 AATCGGAAATCTCAGA

                                         *      *   *                        
       2398 AGGCTTGAAGTTTTGAATTTAAAAGACTGTAAAAGTTTTAAGAGTCTTCCAACCAAAATTGGAAT
          1 AGGCTT-AAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT

                                                             * *             
       2463 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCCTGCCAGAGATTGATG
         65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATG

                            **                                  *            
       2528 GGAAAATGGAATGTTTATTGGAGCTTTATTTAGATGGGACAAACATTAAAGATCTACCTTCTTCA
        130 GGAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTCA

                *          
       2593 ATCGAAAATCTCAGA
        195 ATCGGAAATCTCAGA

              *               *                                 *            
       2608 AGACTTAAAGTTTTGAATCTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAATCAAAATTGGAAT
          1 AGGCTT-AAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAAT

                      *                         *      *    *                
       2673 GGAATCTCTTAAAAAGTTAATTCTTTCAGGTTGCTCCAATCTTAAAAGGTTTCCAGAGATTGATG
         65 GGAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATG

             *           **    *                    ***                      
       2738 GCAAAATGGAATGCCTGCTAGAGCTTTATTTAGATGGGACGGGCATTAAAGAGCTACCTAT-TTC
        130 GGAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCT-TCTTC

               *     
       2802 AATTGGAAA
        194 AATCGGAAA

       2811 CCTGAGCAGT


Statistics
Matches: 368,  Mismatches: 42, Indels: 6
        0.88            0.10        0.01

Matches are distributed among these distances:
 209    4  0.01
 210  360  0.98
 211    4  0.01

ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31


Consensus pattern (209 bp):   
AGGCTTAAGTTTTGAATTTAAAAGACTGCAAAAGTCTTAGGAGTCTTCCAACCAAAATTGGAATG
GAATCTCTTGAAAAGTTAATTCTTTCAGGTTGCTCAAATCTTCAAAGCTTTCCAGAGATTGATGG
GAAAATGGAATGTTTGCTGGAGCTTTATTTAGATGGGACAAACATTAAAGAGCTACCTTCTTCAA
TCGGAAATCTCAGA
Done.