Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Scaffold25.11

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: 3078
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30


Found at i:214 original size:6 final size:6

Alignment explanation


    Indices: 199--266  Score: 81
    Period size: 6  Copynumber: 11.8  Consensus size: 6

        189 AGCTGGAGTC

                 *     *                                            
        199 GAAGAC GAAGTT GAAG-T GGAAGAT GAAGAT G-A-A- GAAGAT GAAGAT
          1 GAAGAT GAAGAT GAAGAT -GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT

                                      
        244 GAAGAT GAAGAT GAAGAT GAAGA
          1 GAAGAT GAAGAT GAAGAT GAAGA

        267 CGACGCCGAC


Statistics
Matches: 55,  Mismatches: 2, Indels: 10
        0.82            0.03        0.15

Matches are distributed among these distances:
   3    1  0.02
   4    2  0.04
   5    3  0.05
   6   48  0.87
   7    1  0.02

ACGTcount: A:0.49, C:0.01, G:0.35, T:0.15


Consensus pattern (6 bp):   
GAAGAT

Found at i:237 original size:15 final size:15

Alignment explanation


    Indices: 217--266  Score: 73
    Period size: 15  Copynumber: 3.1  Consensus size: 15

        207 AGTTGAAGTG

                           
        217 GAAGATGAAGATGAA
          1 GAAGATGAAGATGAA

                             
        232 GAAGATGAAGATGAAGA
          1 GAAGATGAAGATG-A-A

                            
        249 TGAAGATGAAGATGAA
          1 -GAAGATGAAGATGAA

              
        265 GA
          1 GA

        267 CGACGCCGAC


Statistics
Matches: 32,  Mismatches: 0, Indels: 6
        0.84            0.00        0.16

Matches are distributed among these distances:
  15   15  0.47
  16    2  0.06
  17    2  0.06
  18   13  0.41

ACGTcount: A:0.52, C:0.00, G:0.34, T:0.14


Consensus pattern (15 bp):   
GAAGATGAAGATGAA

Done.