Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga03g00048.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, 983

Length: 1639
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27


Found at i:16 original size:9 final size:9

Alignment explanation


    Indices: 3--32  Score: 53
    Period size: 9  Copynumber: 3.4  Consensus size: 9

          1 AG

                     
          3 AAAAAAGAA
          1 AAAAAAGAA

                     
         12 AAAAAAGAA
          1 AAAAAAGAA

                     
         21 AAAAAA-AA
          1 AAAAAAGAA

                
         29 AAAA
          1 AAAA

         33 CCTTGAGTAC


Statistics
Matches: 21,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
   8    6  0.29
   9   15  0.71

ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00


Consensus pattern (9 bp):   
AAAAAAGAA

Found at i:22 original size:16 final size:15

Alignment explanation


    Indices: 1--32  Score: 55
    Period size: 15  Copynumber: 2.1  Consensus size: 15

                            
          1 AGAAAAAAGAAAAAAA
          1 AGAAAAAA-AAAAAAA

                           
         17 AGAAAAAAAAAAAAA
          1 AGAAAAAAAAAAAAA

             
         32 A
          1 A

         33 CCTTGAGTAC


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15    8  0.50
  16    8  0.50

ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00


Consensus pattern (15 bp):   
AGAAAAAAAAAAAAA
Done.