Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_636 ID=scaffold_636-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: 5750
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.28

Warning! 671 characters in sequence are not A, C, G, or T


Found at i:3977 original size:51 final size:50

Alignment explanation


    Indices: 3908--4081  Score: 140
    Period size: 51  Copynumber: 3.4  Consensus size: 50

       3898 TGTGGCACGG

                    *    *         *                           
       3908 ACTATGTGTAGGCCACTATGTAAAAGTGAAAGTGATGGTCACGTGTGTAGT
          1 ACTATGTGCAGGCTACTATGTAACAGTGAAAGT-ATGGTCACGTGTGTAGT

                                 **  **            *             
       3959 ACTATGTGCAGGCTACTATG-CGCACCGAATAGCT-TCGATCACGTGTGTAGT
          1 ACTATGTGCAGGCTACTATGTAACAGTGAA-AG-TAT-GGTCACGTGTGTAGT

                                    * *    *           **        
       4010 ACTATGTGCAGGCTACTACGTGTATCGGATGGAA--ATGGTCAAATGTGTAGT
          1 ACTATGTGCAGGCTACTA--TGTAACAG-TGAAAGTATGGTCACGTGTGTAGT

                                 
       4061 ACTATGTGCAGGCTACTATGT
          1 ACTATGTGCAGGCTACTATGT

       4082 GAACCGGGTA


Statistics
Matches: 98,  Mismatches: 17, Indels: 18
        0.74            0.13        0.14

Matches are distributed among these distances:
  49    3  0.03
  50    5  0.05
  51   82  0.84
  52    2  0.02
  53    2  0.02
  54    2  0.02
  55    2  0.02

ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29


Consensus pattern (50 bp):   
ACTATGTGCAGGCTACTATGTAACAGTGAAAGTATGGTCACGTGTGTAGT
Done.