Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g00034.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: 2514
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30


Found at i:2159 original size:15 final size:14

Alignment explanation


    Indices: 2139--2187  Score: 62
    Period size: 15  Copynumber: 3.3  Consensus size: 14

       2129 GTTAATAGGG

                       *   
       2139 AAGAAAAAAAGGGAA
          1 AAGAAAAAAA-AGAA

                           
       2154 AAGAAAAGAAAAGAA
          1 AAGAAAA-AAAAGAA

                           
       2169 AAGAAAAAGAAAGAA
          1 AAGAAAAA-AAAGAA

                
       2184 AAGA
          1 AAGA

       2188 GACGAGACGA


Statistics
Matches: 31,  Mismatches: 1, Indels: 4
        0.86            0.03        0.11

Matches are distributed among these distances:
  14    1  0.03
  15   27  0.87
  16    3  0.10

ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00


Consensus pattern (14 bp):   
AAGAAAAAAAAGAA

Found at i:2161 original size:5 final size:5

Alignment explanation


    Indices: 2151--2187  Score: 58
    Period size: 5  Copynumber: 7.4  Consensus size: 5

       2141 GAAAAAAAGG

                                                         
       2151 GAAAA GAAAA GAAAA GAAAA GAAAA -AGAAA GAAAA GA
          1 GAAAA GAAAA GAAAA GAAAA GAAAA GA-AAA GAAAA GA

       2188 GACGAGACGA


Statistics
Matches: 30,  Mismatches: 0, Indels: 4
        0.88            0.00        0.12

Matches are distributed among these distances:
   4    1  0.03
   5   28  0.93
   6    1  0.03

ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00


Consensus pattern (5 bp):   
GAAAA

Done.