Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00830.M4

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: 6745
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30


Found at i:6464 original size:15 final size:16

Alignment explanation


    Indices: 6439--6469  Score: 55
    Period size: 15  Copynumber: 2.0  Consensus size: 16

       6429 GCAACAACTT

                            
       6439 AGAGCGGAGGCAGCAG
          1 AGAGCGGAGGCAGCAG

                            
       6455 AGAG-GGAGGCAGCAG
          1 AGAGCGGAGGCAGCAG

       6470 CAGCAGCGAG


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15   11  0.73
  16    4  0.27

ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00


Consensus pattern (16 bp):   
AGAGCGGAGGCAGCAG

Found at i:6540 original size:21 final size:21

Alignment explanation


    Indices: 6445--6540  Score: 133
    Period size: 21  Copynumber: 4.6  Consensus size: 21

       6435 ACTTAGAGCG

                      *          
       6445 GAGGCAGCAGAGAGGGAGGCA
          1 GAGGCAGCAGCGAGGGAGGCA

                                  
       6466 GCA-GCAGCAGCGAGGGAGGCA
          1 G-AGGCAGCAGCGAGGGAGGCA

             *       *           
       6487 GCGGCAGCAACGAGGGAGGCA
          1 GAGGCAGCAGCGAGGGAGGCA

                                  
       6508 GAGGCA-CGAGCGAGGGAGGCA
          1 GAGGCAGC-AGCGAGGGAGGCA

                        
       6529 GAGGCAGCAGCG
          1 GAGGCAGCAGCG

       6541 GTGGCAGTAG


Statistics
Matches: 66,  Mismatches: 5, Indels: 8
        0.84            0.06        0.10

Matches are distributed among these distances:
  20    1  0.02
  21   63  0.95
  22    2  0.03

ACGTcount: A:0.29, C:0.21, G:0.50, T:0.00


Consensus pattern (21 bp):   
GAGGCAGCAGCGAGGGAGGCA
Done.