Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Scaffold4.554

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, 324

Length: 540
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20


Found at i:343 original size:42 final size:42

Alignment explanation


    Indices: 286--368  Score: 114
    Period size: 42  Copynumber: 2.0  Consensus size: 42

        276 CAGAAAGGGG

                 *                        *            
        286 AACCTCATTCATCAAGAAAA-TGTGGAACTCTATAAGAAGGTA
          1 AACCTAATTCATCAAGAAAACT-TGGAACTATATAAGAAGGTA

                      *                *             
        328 AACCTAATTCGTCAAGAAAACTTGGAATTATATAAGAAGGT
          1 AACCTAATTCATCAAGAAAACTTGGAACTATATAAGAAGGT

        369 TTATGGAACA


Statistics
Matches: 36,  Mismatches: 4, Indels: 2
        0.86            0.10        0.05

Matches are distributed among these distances:
  42   35  0.97
  43    1  0.03

ACGTcount: A:0.43, C:0.14, G:0.17, T:0.25


Consensus pattern (42 bp):   
AACCTAATTCATCAAGAAAACTTGGAACTATATAAGAAGGTA
Done.