Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2027

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: 5306
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30


Found at i:458 original size:26 final size:27

Alignment explanation


    Indices: 406--501  Score: 106
    Period size: 26  Copynumber: 3.5  Consensus size: 27

        396 ATATTAAGTC

                    *                  
        406 CGCACACTCAGTGCTATATAATCAACT
          1 CGCACACTTAGTGCTATATAATCAACT

                                        
        433 CGCACA-TTAGTGCTAT-TAATCAAACT
          1 CGCACACTTAGTGCTATATAATC-AACT

                           *  *     *   *
        459 CGCACACTTAGTGCTGTACAATTTAAACC
          1 CGCACACTTAGTGCTATATAA--TCAACT

                          
        488 CGCACACTTAGTGC
          1 CGCACACTTAGTGC

        502 CAATCTCATG


Statistics
Matches: 59,  Mismatches: 5, Indels: 8
        0.82            0.07        0.11

Matches are distributed among these distances:
  25    5  0.08
  26   19  0.32
  27   15  0.25
  28    2  0.03
  29   17  0.29
  30    1  0.02

ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27


Consensus pattern (27 bp):   
CGCACACTTAGTGCTATATAATCAACT
Done.