Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_988 ID=scaffold_988-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: 1682
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34


Found at i:798 original size:42 final size:42

Alignment explanation


    Indices: 751--860  Score: 202
    Period size: 42  Copynumber: 2.6  Consensus size: 42

        741 TGCACCAATT

                        *                             
        751 TGATCAAAATTTTAATTGCTCTGATTACCTCATGCCCCATTC
          1 TGATCAAAATTTGAATTGCTCTGATTACCTCATGCCCCATTC

                                                 *    
        793 TGATCAAAATTTGAATTGCTCTGATTACCTCATGCCCTATTC
          1 TGATCAAAATTTGAATTGCTCTGATTACCTCATGCCCCATTC

                                      
        835 TGATCAAAATTTGAATTGCTCTGATT
          1 TGATCAAAATTTGAATTGCTCTGATT

        861 GAGTTTTCAA


Statistics
Matches: 66,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  42   66  1.00

ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39


Consensus pattern (42 bp):   
TGATCAAAATTTGAATTGCTCTGATTACCTCATGCCCCATTC

Found at i:959 original size:14 final size:14

Alignment explanation


    Indices: 923--952  Score: 60
    Period size: 14  Copynumber: 2.1  Consensus size: 14

        913 CCTTAGCCTC

                          
        923 TCCATTTTTCATTT
          1 TCCATTTTTCATTT

                          
        937 TCCATTTTTCATTT
          1 TCCATTTTTCATTT

              
        951 TC
          1 TC

        953 ACTTTTTTCC


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   16  1.00

ACGTcount: A:0.13, C:0.23, G:0.00, T:0.63


Consensus pattern (14 bp):   
TCCATTTTTCATTT
Done.