Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga04g01025.M1

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: 7575
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.37


Found at i:4521 original size:39 final size:39

Alignment explanation


    Indices: 4476--4743  Score: 466
    Period size: 39  Copynumber: 6.9  Consensus size: 39

       4466 ATGCAAGACA

                              *                    
       4476 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

                    *                              
       4515 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

                                                   
       4554 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

                                                   
       4593 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

                              *                    
       4632 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

                                                *  
       4671 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCTTG
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

             *               **                
       4710 CGGGAAATGTAT-CGGGTTAAAGTCCCGCAGGCTT
          1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTT

       4744 TGTACTGGTA


Statistics
Matches: 220,  Mismatches: 9, Indels: 1
        0.96            0.04        0.00

Matches are distributed among these distances:
  38   20  0.09
  39  200  0.91

ACGTcount: A:0.21, C:0.26, G:0.30, T:0.22


Consensus pattern (39 bp):   
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG

Found at i:6779 original size:30 final size:30

Alignment explanation


    Indices: 6743--6801  Score: 91
    Period size: 30  Copynumber: 2.0  Consensus size: 30

       6733 ATGCTAAAAC

                          *   *           
       6743 TTTCAAAGAACATACACGGTTAAAAGTTCA
          1 TTTCAAAGAACATAAACGATTAAAAGTTCA

                                  *      
       6773 TTTCAAAGAACATAAACGATTAGAAGTTC
          1 TTTCAAAGAACATAAACGATTAAAAGTTC

       6802 CTTTTTTTCA


Statistics
Matches: 26,  Mismatches: 3, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  30   26  1.00

ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27


Consensus pattern (30 bp):   
TTTCAAAGAACATAAACGATTAAAAGTTCA
Done.