Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_865 ID=scaffold_865-JGI_221_v2.0

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: 5416
ACGTcount: A:0.18, C:0.07, G:0.10, T:0.20

Warning! 2465 characters in sequence are not A, C, G, or T


Found at i:61 original size:45 final size:45

Alignment explanation


    Indices: 6--179  Score: 149
    Period size: 45  Copynumber: 3.9  Consensus size: 45

          1 TTGAT

                          *                        *       
          6 TCATGATGCCATAGTA-TCTTTCAG-TGATGATCTTACTTGATAAAA
          1 TCATGATGCCATA-AAGTCTTTCAGCT-ATGATCTTACTCGATAAAA

              *                          *            *  
         51 TCGTGATGCCATAAAGTCTTTCAGCTATGGTCTTACTCGATAGAA
          1 TCATGATGCCATAAAGTCTTTCAGCTATGATCTTACTCGATAAAA

                                  *   *      *     *    *  
         96 TCATGATGCCATAACA-TCTTTTAGCCAT-AGTTTTACTTGATAGAA
          1 TCATGATGCCATAA-AGTCTTTCAGCTATGA-TCTTACTCGATAAAA

             **     *     *        *               
        141 TTGTGATGTCATAACGTCTTTCAACTATGATCTTACTCG
          1 TCATGATGCCATAAAGTCTTTCAGCTATGATCTTACTCG

        180 TTTCTGGTAT


Statistics
Matches: 103,  Mismatches: 20, Indels: 12
        0.76            0.15        0.09

Matches are distributed among these distances:
  44    1  0.01
  45   99  0.96
  46    3  0.03

ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37


Consensus pattern (45 bp):   
TCATGATGCCATAAAGTCTTTCAGCTATGATCTTACTCGATAAAA
Done.