Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g02888.F5

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: 3211
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:62 original size:10 final size:10

Alignment explanation


    Indices: 47--77  Score: 53
    Period size: 10  Copynumber: 3.0  Consensus size: 10

         37 ATTGTTTAGA

                      
         47 TTTTTAAAAT
          1 TTTTTAAAAT

                       
         57 TTTTTAAAATT
          1 TTTTTAAAA-T

                      
         68 TTTTTAAAAT
          1 TTTTTAAAAT

         78 ATAAATTTTA


Statistics
Matches: 20,  Mismatches: 0, Indels: 2
        0.91            0.00        0.09

Matches are distributed among these distances:
  10   10  0.50
  11   10  0.50

ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61


Consensus pattern (10 bp):   
TTTTTAAAAT

Found at i:70 original size:11 final size:11

Alignment explanation


    Indices: 47--77  Score: 55
    Period size: 11  Copynumber: 2.9  Consensus size: 11

         37 ATTGTTTAGA

                       
         47 TTTTTAAAA-T
          1 TTTTTAAAATT

                       
         57 TTTTTAAAATT
          1 TTTTTAAAATT

                      
         68 TTTTTAAAAT
          1 TTTTTAAAAT

         78 ATAAATTTTA


Statistics
Matches: 20,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  10    9  0.45
  11   11  0.55

ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61


Consensus pattern (11 bp):   
TTTTTAAAATT

Found at i:93 original size:25 final size:27

Alignment explanation


    Indices: 65--114  Score: 68
    Period size: 25  Copynumber: 1.9  Consensus size: 27

         55 ATTTTTTAAA

                  *                    
         65 ATTTTTTTAAA-ATATA-AATTTTAGG
          1 ATTTTTATAAATATATAGAATTTTAGG

                          *          
         90 ATTTTTATAAATATTTAGAATTTTA
          1 ATTTTTATAAATATATAGAATTTTA

        115 TAAATTATTT


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  25   10  0.48
  26    4  0.19
  27    7  0.33

ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54


Consensus pattern (27 bp):   
ATTTTTATAAATATATAGAATTTTAGG

Found at i:112 original size:19 final size:19

Alignment explanation


    Indices: 77--130  Score: 67
    Period size: 18  Copynumber: 2.9  Consensus size: 19

         67 TTTTTTAAAA

                         *     
         77 TATAAAT-TTTAGGATTTT
          1 TATAAATATTTAGAATTTT

                               
         95 TATAAATATTTAGAA-TTT
          1 TATAAATATTTAGAATTTT

                        *     
        113 TATAAATTATTTTGAATT
          1 TATAAA-TATTTAGAATT

        131 ATTTTATAAT


Statistics
Matches: 31,  Mismatches: 2, Indels: 4
        0.84            0.05        0.11

Matches are distributed among these distances:
  18   16  0.52
  19   14  0.45
  20    1  0.03

ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54


Consensus pattern (19 bp):   
TATAAATATTTAGAATTTT
Done.