Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Scaffold2455

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: 3495
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33


Found at i:1730 original size:40 final size:40

Alignment explanation


    Indices: 1652--1796  Score: 177
    Period size: 40  Copynumber: 3.6  Consensus size: 40

       1642 TACTCGAATG

                           *                          
       1652 ATATCCGGGCTAAGTCTCCGAAGGC-TTTGTGCTAAGCGACT
          1 ATATCCGGGCTAAG-ATCCGAAGGCATTTGTGCT-AGCGACT

             *      *                               
       1693 ACATCCGGACTAAGATCCGAAGGCATTTGTGCTAGCGACT
          1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT

                                         *      *   *
       1733 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
          1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGACT

                     *     *        
       1773 ATATCCGGGTTAAGACCCGAAGGC
          1 ATATCCGGGCTAAGATCCGAAGGC

       1797 CTTGTGCGAG


Statistics
Matches: 91,  Mismatches: 10, Indels: 7
        0.84            0.09        0.06

Matches are distributed among these distances:
  39    1  0.01
  40   70  0.77
  41   20  0.22

ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23


Consensus pattern (40 bp):   
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGACT
Done.