Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00042.N1

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, 686

Length: 1144
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.27


Found at i:943 original size:17 final size:18

Alignment explanation


    Indices: 917--961  Score: 58
    Period size: 17  Copynumber: 2.6  Consensus size: 18

        907 AGTGGTAAAA

                 *            
        917 GAAGATGAAAAGAAG-AT
          1 GAAGAAGAAAAGAAGCAT

                              
        934 GAAGAAGAAAAGAAGCAT
          1 GAAGAAGAAAAGAAGCAT

                *      
        952 -AAGGAGAAAA
          1 GAAGAAGAAAA

        962 CGATGAAGAG


Statistics
Matches: 25,  Mismatches: 2, Indels: 2
        0.86            0.07        0.07

Matches are distributed among these distances:
  17   23  0.92
  18    2  0.08

ACGTcount: A:0.62, C:0.02, G:0.29, T:0.07


Consensus pattern (18 bp):   
GAAGAAGAAAAGAAGCAT

Found at i:948 original size:11 final size:11

Alignment explanation


    Indices: 913--942  Score: 51
    Period size: 11  Copynumber: 2.6  Consensus size: 11

        903 AAGAAGTGGT

                       
        913 AAAAGAAGATG
          1 AAAAGAAGATG

                       
        924 AAAAGAAGATG
          1 AAAAGAAGATG

                    
        935 AAGAAGAA
          1 AA-AAGAA

        943 AAGAAGCATA


Statistics
Matches: 18,  Mismatches: 0, Indels: 1
        0.95            0.00        0.05

Matches are distributed among these distances:
  11   13  0.72
  12    5  0.28

ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07


Consensus pattern (11 bp):   
AAAAGAAGATG
Done.