Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g01026.F4

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: 1783
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35


Found at i:304 original size:16 final size:15

Alignment explanation


    Indices: 283--320  Score: 67
    Period size: 15  Copynumber: 2.5  Consensus size: 15

        273 CTTGGATTCT

                            
        283 TTTTTTTATCTTTTTA
          1 TTTTTTTAT-TTTTTA

                           
        299 TTTTTTTATTTTTTA
          1 TTTTTTTATTTTTTA

                   
        314 TTTTTTT
          1 TTTTTTT

        321 CTGGTTTACT


Statistics
Matches: 22,  Mismatches: 0, Indels: 1
        0.96            0.00        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87


Consensus pattern (15 bp):   
TTTTTTTATTTTTTA

Found at i:310 original size:6 final size:7

Alignment explanation


    Indices: 284--319  Score: 54
    Period size: 7  Copynumber: 4.9  Consensus size: 7

        274 TTGGATTCTT

                   
        284 TTTTTTA
          1 TTTTTTA

                    
        291 TCTTTTTA
          1 T-TTTTTA

                    
        299 TTTTTTTA
          1 -TTTTTTA

                   
        307 TTTTTTA
          1 TTTTTTA

                  
        314 TTTTTT
          1 TTTTTT

        320 TCTGGTTTAC


Statistics
Matches: 27,  Mismatches: 0, Indels: 4
        0.87            0.00        0.13

Matches are distributed among these distances:
   7   14  0.52
   8   12  0.44
   9    1  0.04

ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86


Consensus pattern (7 bp):   
TTTTTTA

Found at i:320 original size:8 final size:8

Alignment explanation


    Indices: 283--320  Score: 60
    Period size: 8  Copynumber: 4.9  Consensus size: 8

        273 CTTGGATTCT

                    
        283 TTTTTTTA
          1 TTTTTTTA

             *      
        291 TCTTTTTA
          1 TTTTTTTA

                    
        299 TTTTTTTA
          1 TTTTTTTA

                    
        307 -TTTTTTA
          1 TTTTTTTA

                   
        314 TTTTTTT
          1 TTTTTTT

        321 CTGGTTTACT


Statistics
Matches: 27,  Mismatches: 2, Indels: 2
        0.87            0.06        0.06

Matches are distributed among these distances:
   7    7  0.26
   8   20  0.74

ACGTcount: A:0.11, C:0.03, G:0.00, T:0.87


Consensus pattern (8 bp):   
TTTTTTTA
Done.