Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga02g00524.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, 707

Length: 1179
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37


Found at i:709 original size:4 final size:4

Alignment explanation


    Indices: 700--738  Score: 53
    Period size: 4  Copynumber: 9.5  Consensus size: 4

        690 TTTATTTTGG

                                                             
        700 TTAT TTAT TTAT TTATT TTGAT TTAT TT-T TTAT TTAT TT
          1 TTAT TTAT TTAT TTA-T TT-AT TTAT TTAT TTAT TTAT TT

        739 TTTGATTTTT


Statistics
Matches: 32,  Mismatches: 0, Indels: 6
        0.84            0.00        0.16

Matches are distributed among these distances:
   3    3  0.09
   4   22  0.69
   5    6  0.19
   6    1  0.03

ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77


Consensus pattern (4 bp):   
TTAT

Found at i:716 original size:21 final size:21

Alignment explanation


    Indices: 690--739  Score: 75
    Period size: 21  Copynumber: 2.4  Consensus size: 21

        680 TAATTTGGAC

                                  
        690 TTTATTTTG-GTTATTTATTTA
          1 TTTATTTTGAGTTATTT-TTTA

                      *          
        711 TTTATTTTGATTTATTTTTTA
          1 TTTATTTTGAGTTATTTTTTA

                    
        732 TTTATTTT
          1 TTTATTTT

        740 TTGATTTTTT


Statistics
Matches: 27,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  21   21  0.78
  22    6  0.22

ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76


Consensus pattern (21 bp):   
TTTATTTTGAGTTATTTTTTA

Found at i:740 original size:10 final size:10

Alignment explanation


    Indices: 707--740  Score: 50
    Period size: 10  Copynumber: 3.3  Consensus size: 10

        697 TGGTTATTTA

                      
        707 TTTATTTATT
          1 TTTATTTATT

              *        
        717 TTGATTTATTT
          1 TTTATTTA-TT

                      
        728 TTTATTTATT
          1 TTTATTTATT

               
        738 TTT
          1 TTT

        741 TGATTTTTTG


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

Matches are distributed among these distances:
  10   12  0.57
  11    9  0.43

ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79


Consensus pattern (10 bp):   
TTTATTTATT
Done.