Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00777.F1

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: 4515
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32


Found at i:1887 original size:12 final size:12

Alignment explanation


    Indices: 1870--1909  Score: 52
    Period size: 12  Copynumber: 3.7  Consensus size: 12

       1860 GGAGATAGGA

                        
       1870 AAAACAGGTTCC
          1 AAAACAGGTTCC

                        
       1882 AAAACAGG----
          1 AAAACAGGTTCC

                        
       1890 AAAACAGGTTCC
          1 AAAACAGGTTCC

                    
       1902 AAAACAGG
          1 AAAACAGG

       1910 AATAACAGTG


Statistics
Matches: 24,  Mismatches: 0, Indels: 8
        0.75            0.00        0.25

Matches are distributed among these distances:
   8    8  0.33
  12   16  0.67

ACGTcount: A:0.50, C:0.20, G:0.20, T:0.10


Consensus pattern (12 bp):   
AAAACAGGTTCC

Found at i:1891 original size:21 final size:21

Alignment explanation


    Indices: 1866--1917  Score: 88
    Period size: 20  Copynumber: 2.5  Consensus size: 21

       1856 CAGTGGAGAT

                                 
       1866 AGGAAAAACAGGTTCCAAAAC
          1 AGGAAAAACAGGTTCCAAAAC

                                 
       1887 AGG-AAAACAGGTTCCAAAAC
          1 AGGAAAAACAGGTTCCAAAAC

                 *     
       1907 AGGAATAACAG
          1 AGGAAAAACAG

       1918 TGGCTGTAGG


Statistics
Matches: 29,  Mismatches: 1, Indels: 2
        0.91            0.03        0.06

Matches are distributed among these distances:
  20   20  0.69
  21    9  0.31

ACGTcount: A:0.52, C:0.17, G:0.21, T:0.10


Consensus pattern (21 bp):   
AGGAAAAACAGGTTCCAAAAC

Done.