Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g03606.N6

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: 3225
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35


Found at i:1878 original size:19 final size:21

Alignment explanation


    Indices: 1850--1897  Score: 64
    Period size: 20  Copynumber: 2.4  Consensus size: 21

       1840 TTATTATTTA

                                 
       1850 TTTTAGTTTTGATTCTAA-AT
          1 TTTTAGTTTTGATTCTAATAT

                      *   *      
       1870 TTTTA-TTTTTATTTTAATAT
          1 TTTTAGTTTTGATTCTAATAT

                    
       1890 TTTTAGTT
          1 TTTTAGTT

       1898 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:2093 original size:43 final size:43

Alignment explanation


    Indices: 2046--2139  Score: 145
    Period size: 43  Copynumber: 2.2  Consensus size: 43

       2036 TTGTGAGAAA

                              *                         
       2046 GCGTTTTTGGGAAAAGCGTCGCTAAAGGTCT-TGACCTTTAGCG
          1 GCGTTTTTGGGAAAAGCGCCGCTAAAGGT-TATGACCTTTAGCG

                  *                                    
       2089 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG
          1 GCGTTTTTGGGAAAAGCGCCGCTAAAGGTTATGACCTTTAGCG

             *      
       2132 GTGTTTTT
          1 GCGTTTTT

       2140 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.