Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold_239 ID=scaffold_239-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: 9068
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30


Found at i:7863 original size:22 final size:21

Alignment explanation


    Indices: 7838--7879  Score: 66
    Period size: 22  Copynumber: 2.0  Consensus size: 21

       7828 AGAAAAAAAT

                     *            
       7838 TTTAATTTTCCTATTATTATTA
          1 TTTAATTTTACTATT-TTATTA

                                
       7860 TTTAATTTTACTATTTTATT
          1 TTTAATTTTACTATTTTATT

       7880 TTATTTTTGT


Statistics
Matches: 19,  Mismatches: 1, Indels: 1
        0.90            0.05        0.05

Matches are distributed among these distances:
  21    5  0.26
  22   14  0.74

ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67


Consensus pattern (21 bp):   
TTTAATTTTACTATTTTATTA

Found at i:8490 original size:12 final size:13

Alignment explanation


    Indices: 8473--8501  Score: 51
    Period size: 12  Copynumber: 2.3  Consensus size: 13

       8463 CTAAGTACAA

                         
       8473 AAATAAAT-AAAT
          1 AAATAAATAAAAT

                         
       8485 AAATAAATAAAAT
          1 AAATAAATAAAAT

                
       8498 AAAT
          1 AAAT

       8502 TAGGGGTAGG


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  12    8  0.50
  13    8  0.50

ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24


Consensus pattern (13 bp):   
AAATAAATAAAAT
Done.