Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g01406.M2

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: 7043
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32


Found at i:5272 original size:7 final size:7

Alignment explanation


    Indices: 5262--5309  Score: 87
    Period size: 7  Copynumber: 6.9  Consensus size: 7

       5252 AGTAAATGGG

                   
       5262 AAATGAT
          1 AAATGAT

                   
       5269 AAATGAT
          1 AAATGAT

                   
       5276 AAATGAT
          1 AAATGAT

                *  
       5283 AAATTAT
          1 AAATGAT

                   
       5290 AAATGAT
          1 AAATGAT

                   
       5297 AAATGAT
          1 AAATGAT

                  
       5304 AAATGA
          1 AAATGA

       5310 ATACGAATCT


Statistics
Matches: 39,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
   7   39  1.00

ACGTcount: A:0.58, C:0.00, G:0.12, T:0.29


Consensus pattern (7 bp):   
AAATGAT

Found at i:5280 original size:21 final size:21

Alignment explanation


    Indices: 5254--5309  Score: 76
    Period size: 21  Copynumber: 2.7  Consensus size: 21

       5244 TTAATAGTAG

                  *              
       5254 TAAATGGGAAATGATAAATGA
          1 TAAATGAGAAATGATAAATGA

                   *    *        
       5275 TAAATGATAAATTATAAATGA
          1 TAAATGAGAAATGATAAATGA

                   *      
       5296 TAAATGATAAATGA
          1 TAAATGAGAAATGA

       5310 ATACGAATCT


Statistics
Matches: 31,  Mismatches: 4, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   31  1.00

ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29


Consensus pattern (21 bp):   
TAAATGAGAAATGATAAATGA

Found at i:6776 original size:43 final size:43

Alignment explanation


    Indices: 6693--6777  Score: 134
    Period size: 43  Copynumber: 2.0  Consensus size: 43

       6683 TTTATCCTAG

                              *          * *           
       6693 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTGGATTGTTGA
          1 AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGATTGTTGA

                                               *      
       6736 AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGGTTGTTG
          1 AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGATTGTTG

       6778 GATTTACCTC


Statistics
Matches: 38,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  43   38  1.00

ACGTcount: A:0.51, C:0.02, G:0.24, T:0.24


Consensus pattern (43 bp):   
AAAAAGAATTTAAAAAGAAGAGAAGATAAACATGGATTGTTGA
Done.