Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga05g01767.M1

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: 2584
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30


Found at i:1759 original size:25 final size:25

Alignment explanation


    Indices: 1730--1780  Score: 93
    Period size: 25  Copynumber: 2.0  Consensus size: 25

       1720 GAGCTTTCCA

                 *                   
       1730 ATGTCCAAGCTGCAAGCTTAGCAAG
          1 ATGTCAAAGCTGCAAGCTTAGCAAG

                                     
       1755 ATGTCAAAGCTGCAAGCTTAGCAAG
          1 ATGTCAAAGCTGCAAGCTTAGCAAG

             
       1780 A
          1 A

       1781 AGTGATAGTT


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  25   25  1.00

ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20


Consensus pattern (25 bp):   
ATGTCAAAGCTGCAAGCTTAGCAAG

Found at i:1890 original size:72 final size:72

Alignment explanation


    Indices: 1800--1942  Score: 214
    Period size: 72  Copynumber: 2.0  Consensus size: 72

       1790 TGCGAGCCTA

                                        *   **                     *         
       1800 TTGAAGACACCAACTGAAGACAGTAAGCCAAAGTGCGAGCCTGTCAAAGGTGTATGGTTGCAAGC
          1 TTGAAGACACCAACTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC

                   
       1865 AGCAAAG
         66 AGCAAAG

                       ***                                               *   
       1872 TTGAAGACACCTGTTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCGAGC
          1 TTGAAGACACCAACTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC

                  
       1937 AGCAAA
         66 AGCAAA

       1943 ATGCAAGCCC


Statistics
Matches: 63,  Mismatches: 8, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  72   63  1.00

ACGTcount: A:0.37, C:0.18, G:0.27, T:0.17


Consensus pattern (72 bp):   
TTGAAGACACCAACTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
AGCAAAG

Found at i:1988 original size:20 final size:20

Alignment explanation


    Indices: 1963--2005  Score: 86
    Period size: 20  Copynumber: 2.1  Consensus size: 20

       1953 GAGTGGGTGC

                                
       1963 AAGCCAAAAATGGCAGACTG
          1 AAGCCAAAAATGGCAGACTG

                                
       1983 AAGCCAAAAATGGCAGACTG
          1 AAGCCAAAAATGGCAGACTG

               
       2003 AAG
          1 AAG

       2006 GCAAGCAAAC


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  20   23  1.00

ACGTcount: A:0.47, C:0.19, G:0.26, T:0.09


Consensus pattern (20 bp):   
AAGCCAAAAATGGCAGACTG
Done.