Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: evm.model.Scaffold106.453

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, 212

Length: 354
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.23


Found at i:337 original size:36 final size:36

Alignment explanation


    Indices: 270--338  Score: 86
    Period size: 36  Copynumber: 1.9  Consensus size: 36

        260 AGCAAGTTCA

                                      *         
        270 GGCTATGGACAGAATTTTGGGCAAGATGCAAATTTT
          1 GGCTATGGACAGAATTTTGGGCAAGAGGCAAATTTT

                    **   *                    
        306 GGCTATGGGGAGAGTTTTGGGCAA-AGGGCAAAT
          1 GGCTATGGACAGAATTTTGGGCAAGA-GGCAAAT

        339 CCTGGCTGTG


Statistics
Matches: 28,  Mismatches: 4, Indels: 2
        0.82            0.12        0.06

Matches are distributed among these distances:
  35    1  0.04
  36   27  0.96

ACGTcount: A:0.29, C:0.10, G:0.35, T:0.26


Consensus pattern (36 bp):   
GGCTATGGACAGAATTTTGGGCAAGAGGCAAATTTT

Found at i:345 original size:36 final size:36

Alignment explanation


    Indices: 270--351  Score: 85
    Period size: 36  Copynumber: 2.3  Consensus size: 36

        260 AGCAAGTTCA

                    *                 *      ** 
        270 GGCTATGGACAGAATTTTGGGCAAGATGCAAATTTT
          1 GGCTATGGGCAGAATTTTGGGCAAGAGGCAAATCCT

                     *   *                       
        306 GGCTATGGGGAGAGTTTTGGGCAA-AGGGCAAATCCT
          1 GGCTATGGGCAGAATTTTGGGCAAGA-GGCAAATCCT

                *     
        342 GGCTGTGGGC
          1 GGCTATGGGC

        352 TGA


Statistics
Matches: 37,  Mismatches: 8, Indels: 2
        0.79            0.17        0.04

Matches are distributed among these distances:
  35    1  0.03
  36   36  0.97

ACGTcount: A:0.24, C:0.13, G:0.37, T:0.26


Consensus pattern (36 bp):   
GGCTATGGGCAGAATTTTGGGCAAGAGGCAAATCCT
Done.