Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_838 ID=scaffold_838-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: 5707
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.18

Warning! 2428 characters in sequence are not A, C, G, or T


Found at i:4773 original size:10 final size:10

Alignment explanation


    Indices: 4758--4787  Score: 60
    Period size: 10  Copynumber: 3.0  Consensus size: 10

       4748 ATTATATATA

                      
       4758 TTTTTTTCTC
          1 TTTTTTTCTC

                      
       4768 TTTTTTTCTC
          1 TTTTTTTCTC

                      
       4778 TTTTTTTCTC
          1 TTTTTTTCTC

       4788 CTTTGATACT


Statistics
Matches: 20,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  10   20  1.00

ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80


Consensus pattern (10 bp):   
TTTTTTTCTC

Found at i:5474 original size:42 final size:42

Alignment explanation


    Indices: 5427--5509  Score: 157
    Period size: 42  Copynumber: 2.0  Consensus size: 42

       5417 AATATGTGTG

                         *                            
       5427 AAACGTTTGAAATTCAAACATTTGAACTCTTGTTCTTATCCA
          1 AAACGTTTGAAATCCAAACATTTGAACTCTTGTTCTTATCCA

                                                     
       5469 AAACGTTTGAAATCCAAACATTTGAACTCTTGTTCTTATCC
          1 AAACGTTTGAAATCCAAACATTTGAACTCTTGTTCTTATCC

       5510 TTTGAATTTT


Statistics
Matches: 40,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  42   40  1.00

ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37


Consensus pattern (42 bp):   
AAACGTTTGAAATCCAAACATTTGAACTCTTGTTCTTATCCA
Done.