Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga13g00661.F2

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: 1796
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29


Found at i:53 original size:19 final size:19

Alignment explanation


    Indices: 23--76  Score: 69
    Period size: 19  Copynumber: 3.0  Consensus size: 19

         13 TCCCTCCAGA

                               
         23 ATTTTTTA--TTTTATTTT
          1 ATTTTTTATTTTTTATTTT

                             * 
         40 ATTTTTTATTTTTTATTAT
          1 ATTTTTTATTTTTTATTTT

                   *           
         59 ATTTTTTGTTTTTT-TTTT
          1 ATTTTTTATTTTTTATTTT

         77 TCATGAAAAC


Statistics
Matches: 32,  Mismatches: 3, Indels: 3
        0.84            0.08        0.08

Matches are distributed among these distances:
  17    8  0.25
  18    3  0.09
  19   21  0.66

ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83


Consensus pattern (19 bp):   
ATTTTTTATTTTTTATTTT

Found at i:55 original size:24 final size:24

Alignment explanation


    Indices: 23--77  Score: 76
    Period size: 24  Copynumber: 2.3  Consensus size: 24

         13 TCCCTCCAGA

                      *              
         23 ATTTTTTATTTTATTTTATT-TTTT
          1 ATTTTTTATTATATTTT-TTGTTTT

                                    
         47 ATTTTTTATTATATTTTTTGTTTT
          1 ATTTTTTATTATATTTTTTGTTTT

            *      
         71 TTTTTTT
          1 ATTTTTT

         78 CATGAAAACA


Statistics
Matches: 28,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  23    2  0.07
  24   26  0.93

ACGTcount: A:0.15, C:0.00, G:0.02, T:0.84


Consensus pattern (24 bp):   
ATTTTTTATTATATTTTTTGTTTT

Found at i:77 original size:12 final size:12

Alignment explanation


    Indices: 23--76  Score: 67
    Period size: 12  Copynumber: 4.6  Consensus size: 12

         13 TCCCTCCAGA

                        
         23 ATTTTTTATTTT
          1 ATTTTTTATTTT

                         
         35 ATTTTATT-TTTT
          1 ATTTT-TTATTTT

                      * 
         47 ATTTTTTATTAT
          1 ATTTTTTATTTT

                   *    
         59 ATTTTTTGTTTT
          1 ATTTTTTATTTT

                   
         71 -TTTTTT
          1 ATTTTTT

         77 TCATGAAAAC


Statistics
Matches: 37,  Mismatches: 3, Indels: 5
        0.82            0.07        0.11

Matches are distributed among these distances:
  11    8  0.22
  12   27  0.73
  13    2  0.05

ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83


Consensus pattern (12 bp):   
ATTTTTTATTTT
Done.