Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga14g00831.C1

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: 4173
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28


Found at i:3892 original size:15 final size:16

Alignment explanation


    Indices: 3867--3897  Score: 55
    Period size: 15  Copynumber: 2.0  Consensus size: 16

       3857 GCAACAACTT

                            
       3867 AGAGCGGAGGCAGCAG
          1 AGAGCGGAGGCAGCAG

                            
       3883 AGAG-GGAGGCAGCAG
          1 AGAGCGGAGGCAGCAG

       3898 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:3968 original size:21 final size:21

Alignment explanation


    Indices: 3873--3968  Score: 133
    Period size: 21  Copynumber: 4.6  Consensus size: 21

       3863 ACTTAGAGCG

                      *          
       3873 GAGGCAGCAGAGAGGGAGGCA
          1 GAGGCAGCAGCGAGGGAGGCA

                                  
       3894 GCA-GCAGCAGCGAGGGAGGCA
          1 G-AGGCAGCAGCGAGGGAGGCA

             *       *           
       3915 GCGGCAGCAACGAGGGAGGCA
          1 GAGGCAGCAGCGAGGGAGGCA

                                  
       3936 GAGGCA-CGAGCGAGGGAGGCA
          1 GAGGCAGC-AGCGAGGGAGGCA

                        
       3957 GAGGCAGCAGCG
          1 GAGGCAGCAGCG

       3969 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.