Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga12g02515.F2

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: 1831
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35


Found at i:395 original size:50 final size:50

Alignment explanation


    Indices: 341--442  Score: 195
    Period size: 50  Copynumber: 2.0  Consensus size: 50

        331 CTGATCGATA

                                                              
        341 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT
          1 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT

                                                      *       
        391 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCTATCTTCT
          1 TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT

              
        441 TG
          1 TG

        443 TTTTTGTATG


Statistics
Matches: 51,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  50   51  1.00

ACGTcount: A:0.22, C:0.13, G:0.21, T:0.45


Consensus pattern (50 bp):   
TGGGTTCTTGAAGTTGGTTTAAGGAAAAAACTTTTCTGTTTCCATCTTCT

Found at i:1319 original size:12 final size:12

Alignment explanation


    Indices: 1302--1344  Score: 77
    Period size: 12  Copynumber: 3.6  Consensus size: 12

       1292 TAAGGGAAGA

                        
       1302 GAGCCCAAGCAT
          1 GAGCCCAAGCAT

                     *  
       1314 GAGCCCAAGTAT
          1 GAGCCCAAGCAT

                        
       1326 GAGCCCAAGCAT
          1 GAGCCCAAGCAT

                   
       1338 GAGCCCA
          1 GAGCCCA

       1345 GGTATGTCGC


Statistics
Matches: 29,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  12   29  1.00

ACGTcount: A:0.33, C:0.33, G:0.26, T:0.09


Consensus pattern (12 bp):   
GAGCCCAAGCAT

Found at i:1334 original size:24 final size:24

Alignment explanation


    Indices: 1302--1350  Score: 89
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       1292 TAAGGGAAGA

                                    
       1302 GAGCCCAAGCATGAGCCCAAGTAT
          1 GAGCCCAAGCATGAGCCCAAGTAT

                               *    
       1326 GAGCCCAAGCATGAGCCCAGGTAT
          1 GAGCCCAAGCATGAGCCCAAGTAT

             
       1350 G
          1 G

       1351 TCGCCTTTCA


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  24   24  1.00

ACGTcount: A:0.31, C:0.29, G:0.29, T:0.12


Consensus pattern (24 bp):   
GAGCCCAAGCATGAGCCCAAGTAT
Done.