Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g01229.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: 2380
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27


Found at i:1482 original size:48 final size:48

Alignment explanation


    Indices: 1411--1506  Score: 165
    Period size: 48  Copynumber: 2.0  Consensus size: 48

       1401 AAGATGAAAG

                      *  *                     *            
       1411 TAATGTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCC
          1 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC

                                                            
       1459 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
          1 TAATGTTTCAAAGAAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC

       1507 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:1725 original size:192 final size:193

Alignment explanation


    Indices: 1350--1845  Score: 904
    Period size: 192  Copynumber: 2.6  Consensus size: 193

       1340 GCGTTGTGCT

                                                             *               
       1350 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCAGAAGATGAAAGTAAT
          1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCGGAAGATGAAAGTAAT

                                                                             
       1415 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAGAAAA
         66 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAG--AA

                *                                                            
       1480 AGTGCAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA
        129 AGTGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA

                                                                            *
       1545 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCGGAAGATGAAAGTAAC
          1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCGGAAGATGAAAGTAAT

                                    *                                        
       1610 GTTTCAGAGGAAGAAAAAGTGCAGGAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAG-AAG
         66 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCCTAATGTTTCAAAGAAAGAAAG

                          *                                                
       1674 TGAAGCAGAAACAAGAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA
        131 TGAAGCAGAAACAACAAGAAAAGCCCTTGGCCTCTGCATTGAAATCGAAATCAGCTTGCAGCA

                   *                                                         
       1737 ACTGTTGCAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCGGAAGATGAAAGTAAT
          1 ACTGTTGGAACTGCAGCTTGAAAAGATTCTGCTGTTGTTGTTCAGATTCGGAAGATGAAAGTAAT

                                           *            
       1802 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACAACAAGAAAAGCC
         66 GTTTCAGAGGAAGAAAAAGTGCAGCAGAAACTACAAGAAAAGCC

       1846 CCTGGCCTCT


Statistics
Matches: 292,  Mismatches: 9, Indels: 3
        0.96            0.03        0.01

Matches are distributed among these distances:
 192  169  0.58
 195  123  0.42

ACGTcount: A:0.39, C:0.16, G:0.24, T:0.22


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