Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga01g02273.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, 507

Length: 846
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36


Found at i:239 original size:20 final size:22

Alignment explanation


    Indices: 213--277  Score: 62
    Period size: 22  Copynumber: 2.9  Consensus size: 22

        203 TATGTATATA

                                  
        213 GAAAGAAGAAGAAAAAAAA-AC
          1 GAAAGAAGAAGAAAAAAAATAC

                     *            * 
        234 -AAAGAAAAAAAGAAAAAAAATTC
          1 GAAAG--AAGAAGAAAAAAAATAC

                *                
        257 GAAAAAAGAGAGAAAAAAAAT
          1 GAAAGAAGA-AGAAAAAAAAT

        278 GCAAACCTTT


Statistics
Matches: 35,  Mismatches: 4, Indels: 8
        0.74            0.09        0.17

Matches are distributed among these distances:
  20    4  0.11
  22   16  0.46
  23   12  0.34
  24    3  0.09

ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05


Consensus pattern (22 bp):   
GAAAGAAGAAGAAAAAAAATAC

Found at i:263 original size:22 final size:24

Alignment explanation


    Indices: 221--282  Score: 67
    Period size: 23  Copynumber: 2.7  Consensus size: 24

        211 TAGAAAGAAG

                                    
        221 AAGAAAAAAAA-ACAAAGAAAA-A
          1 AAGAAAAAAAATACAAAGAAAAGA

                        * *         
        243 AAGAAAAAAAATTCGAA-AAAAGA
          1 AAGAAAAAAAATACAAAGAAAAGA

            *           *    
        266 GAGAAAAAAAATGCAAA
          1 AAGAAAAAAAATACAAA

        283 CCTTTTTATT


Statistics
Matches: 33,  Mismatches: 5, Indels: 3
        0.80            0.12        0.07

Matches are distributed among these distances:
  22   15  0.45
  23   18  0.55

ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05


Consensus pattern (24 bp):   
AAGAAAAAAAATACAAAGAAAAGA
Done.