Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01229.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: 3063
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29


Found at i:1558 original size:48 final size:48

Alignment explanation


    Indices: 1487--1582  Score: 165
    Period size: 48  Copynumber: 2.0  Consensus size: 48

       1477 AAGATGAAAG

                      *  *                     *            
       1487 TAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCC
          1 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC

                                                            
       1535 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
          1 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC

       1583 CTTGGCCTCT


Statistics
Matches: 45,  Mismatches: 3, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  48   45  1.00

ACGTcount: A:0.51, C:0.15, G:0.21, T:0.14


Consensus pattern (48 bp):   
TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC

Found at i:1801 original size:192 final size:193

Alignment explanation


    Indices: 1426--1858  Score: 787
    Period size: 195  Copynumber: 2.2  Consensus size: 193

       1416 GCGTTGTGCT

                                                                            *
       1426 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCAGAAGATGAAAGTAAT
          1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCAGAAGATGAAAGTAAC

                                                                             
       1491 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAGAAAA
         66 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAG--AA

                *                                                            
       1556 AGTGCAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA
        129 AGTGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA

                                                             *               
       1621 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCGGAAGATGAAAGTAAC
          1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCAGAAGATGAAAGTAAC

                                    *                                        
       1686 GTTTCAGAGGAAGAAAAAGTGCAGGAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAG-AAG
         66 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAGAAAG

                          *                                                
       1750 TGAAGCAGAAACAAGAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA
        131 TGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA

                   *                                      
       1813 ACTGTTGCAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGA
          1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGA

       1859 GTATGTTTCT


Statistics
Matches: 232,  Mismatches: 6, Indels: 3
        0.96            0.02        0.01

Matches are distributed among these distances:
 192  109  0.47
 195  123  0.53

ACGTcount: A:0.37, C:0.16, G:0.24, T:0.23


Consensus pattern (193 bp):   
ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCAGAAGATGAAAGTAAC
GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAGAAAG
TGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA
Done.