Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga08g00276.F1

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: 3930
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34


Found at i:3564 original size:78 final size:78

Alignment explanation


    Indices: 3400--3568  Score: 230
    Period size: 78  Copynumber: 2.2  Consensus size: 78

       3390 AGTTAACCCT

                   *           *                                    *        
       3400 TTTTGGGTTTCAGTTCAGCTCTGATGAGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
          1 TTTTGGGCTTCAGTTCAGCACTGATGAGCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATG

                    *   *
       3465 TGCTTCAGTTAGC
         66 TGCTTCAGCTAGA

            * **       *   *      *   *                                      
       3478 CTCCGGGCTTCCGTTTAGCACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATG
          1 TTTTGGGCTTCAGTTCAGCACTGATGAGCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATG

                         
       3543 TGCTTCAGCTAGA
         66 TGCTTCAGCTAGA

                         
       3556 TTTTGGGCTTCAG
          1 TTTTGGGCTTCAG

       3569 ATCACGATGT


Statistics
Matches: 75,  Mismatches: 16, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
  78   75  1.00

ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38


Consensus pattern (78 bp):   
TTTTGGGCTTCAGTTCAGCACTGATGAGCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATG
TGCTTCAGCTAGA

Found at i:3566 original size:39 final size:39

Alignment explanation


    Indices: 3427--3550  Score: 230
    Period size: 39  Copynumber: 3.2  Consensus size: 39

       3417 GCTCTGATGA

                                                   
       3427 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
          1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT

                          *                        
       3466 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
          1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT

                                         *         
       3505 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTATGT
          1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT

                   
       3544 GCTTCAG
          1 GCTTCAG

       3551 CTAGATTTTG


Statistics
Matches: 82,  Mismatches: 3, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  39   82  1.00

ACGTcount: A:0.14, C:0.27, G:0.23, T:0.37


Consensus pattern (39 bp):   
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Done.