Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03606.N12

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: 2860
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35


Found at i:1513 original size:19 final size:21

Alignment explanation


    Indices: 1485--1532  Score: 64
    Period size: 20  Copynumber: 2.4  Consensus size: 21

       1475 TTATTATTTA

                                 
       1485 TTTTAGTTTTGATTCTAA-AT
          1 TTTTAGTTTTGATTCTAATAT

                      *   *      
       1505 TTTTA-TTTTTATTTTAATAT
          1 TTTTAGTTTTGATTCTAATAT

                    
       1525 TTTTAGTT
          1 TTTTAGTT

       1533 AAAATTTTAA


Statistics
Matches: 24,  Mismatches: 2, Indels: 3
        0.83            0.07        0.10

Matches are distributed among these distances:
  19   10  0.42
  20   12  0.50
  21    2  0.08

ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69


Consensus pattern (21 bp):   
TTTTAGTTTTGATTCTAATAT

Found at i:1728 original size:43 final size:43

Alignment explanation


    Indices: 1681--1774  Score: 145
    Period size: 43  Copynumber: 2.2  Consensus size: 43

       1671 TTGTGAGAAA

                              *                         
       1681 GCGTTTTTGGGAAAAGCGTCGCTAAAGGTCT-TGACCTTTAGCG
          1 GCGTTTTTGGGAAAAGCGCCGCTAAAGGT-TATGACCTTTAGCG

                  *                                    
       1724 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG
          1 GCGTTTTTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG

             *      
       1767 GTGTTTTT
          1 GCGTTTTT

       1775 TTAAATAAAC


Statistics
Matches: 46,  Mismatches: 4, Indels: 2
        0.88            0.08        0.04

Matches are distributed among these distances:
  42    1  0.02
  43   45  0.98

ACGTcount: A:0.20, C:0.17, G:0.31, T:0.32


Consensus pattern (43 bp):   
GCGTTTTTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG
Done.