Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_458 ID=scaffold_458-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: 6765
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37


Found at i:5190 original size:25 final size:25

Alignment explanation


    Indices: 5162--5231  Score: 86
    Period size: 25  Copynumber: 2.8  Consensus size: 25

       5152 TTACTGATTC

                  *                  
       5162 CAGCTCTTATGAGCTTACCGATACT
          1 CAGCTCGTATGAGCTTACCGATACT

                          *     *  * 
       5187 CAGCTCGTATGAGCATACCGTTATT
          1 CAGCTCGTATGAGCTTACCGATACT

                   * *          
       5212 CAGCTCGAAGGAGCTTACCG
          1 CAGCTCGTATGAGCTTACCG

       5232 TTTATAGCTT


Statistics
Matches: 38,  Mismatches: 7, Indels: 0
        0.84            0.16        0.00

Matches are distributed among these distances:
  25   38  1.00

ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27


Consensus pattern (25 bp):   
CAGCTCGTATGAGCTTACCGATACT

Found at i:5443 original size:24 final size:24

Alignment explanation


    Indices: 5390--5445  Score: 69
    Period size: 24  Copynumber: 2.3  Consensus size: 24

       5380 ATATAGGTAT

                                     
       5390 ATACATGAAATACATGGAAATGATG
          1 ATACATGAAATA-ATGGAAATGATG

            *             *          
       5415 GTACATGAAAT-ATTGAAATGGATG
          1 ATACATGAAATAATGGAAAT-GATG

                   
       5439 ATACATG
          1 ATACATG

       5446 TATATGATGA


Statistics
Matches: 27,  Mismatches: 3, Indels: 3
        0.82            0.09        0.09

Matches are distributed among these distances:
  23    7  0.26
  24   10  0.37
  25   10  0.37

ACGTcount: A:0.45, C:0.07, G:0.21, T:0.27


Consensus pattern (24 bp):   
ATACATGAAATAATGGAAATGATG

Done.