Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g00092.N1

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: 5635
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34


Found at i:4354 original size:26 final size:26

Alignment explanation


    Indices: 4318--4401  Score: 150
    Period size: 26  Copynumber: 3.2  Consensus size: 26

       4308 TGATACAAAT

                                   *  
       4318 TGATAATAGGTTAGGTAAATGTTCCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                                      
       4344 TGATAATAGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                   *                  
       4370 TGATAATGGGTTAGGTAAATGTTTCA
          1 TGATAATAGGTTAGGTAAATGTTTCA

                  
       4396 TGATAA
          1 TGATAA

       4402 GAATTTCATG


Statistics
Matches: 56,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  26   56  1.00

ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37


Consensus pattern (26 bp):   
TGATAATAGGTTAGGTAAATGTTTCA

Found at i:5455 original size:21 final size:21

Alignment explanation


    Indices: 5430--5506  Score: 111
    Period size: 21  Copynumber: 3.7  Consensus size: 21

       5420 ACAGTCTAAA

                                  
       5430 ACACGAGCGTGTCCTATGG-CT
          1 ACACGAGCGTGTCCTA-GGTCT

                                 
       5451 ACACGAGCGTGTCCTAGGTCT
          1 ACACGAGCGTGTCCTAGGTCT

                 *        *     *
       5472 ACACGGGCGTGTCCCAGGTCC
          1 ACACGAGCGTGTCCTAGGTCT

                          
       5493 ACACGAGCGTGTCC
          1 ACACGAGCGTGTCC

       5507 CATGTCCACA


Statistics
Matches: 51,  Mismatches: 4, Indels: 2
        0.89            0.07        0.04

Matches are distributed among these distances:
  20    2  0.04
  21   49  0.96

ACGTcount: A:0.18, C:0.32, G:0.30, T:0.19


Consensus pattern (21 bp):   
ACACGAGCGTGTCCTAGGTCT

Found at i:5507 original size:21 final size:21

Alignment explanation


    Indices: 5430--5518  Score: 108
    Period size: 21  Copynumber: 4.2  Consensus size: 21

       5420 ACAGTCTAAA

                          *      *
       5430 ACACGAGCGTGTCCTATGG-CT
          1 ACACGAGCGTGTCCCA-GGTCC

                          *     *
       5451 ACACGAGCGTGTCCTAGGTCT
          1 ACACGAGCGTGTCCCAGGTCC

                 *               
       5472 ACACGGGCGTGTCCCAGGTCC
          1 ACACGAGCGTGTCCCAGGTCC

                            *    
       5493 ACACGAGCGTGTCCCATGTCC
          1 ACACGAGCGTGTCCCAGGTCC

                 
       5514 ACACG
          1 ACACG

       5519 GGCATGTGTG


Statistics
Matches: 62,  Mismatches: 5, Indels: 2
        0.90            0.07        0.03

Matches are distributed among these distances:
  20    2  0.03
  21   60  0.97

ACGTcount: A:0.19, C:0.34, G:0.28, T:0.19


Consensus pattern (21 bp):   
ACACGAGCGTGTCCCAGGTCC
Done.