Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020305.1 Corchorus olitorius cultivar O-4 contig20338, whole genome shotgun sequence

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: 2010
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30


Found at i:277 original size:22 final size:22

Alignment explanation


    Indices: 235--277  Score: 52
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        225 AAATAAGAAA

                      *     *     
        235 ACAAGGAAATGAGTTAGTAACC
          1 ACAAGGAAATAAGTTAATAACC

                                  
        257 ACAAGGAAATTAAG-TAATAAC
          1 ACAAGGAAA-TAAGTTAATAAC

        278 TGAAAATTAA


Statistics
Matches: 18,  Mismatches: 2, Indels: 2
        0.82            0.09        0.09

Matches are distributed among these distances:
  22   15  0.83
  23    3  0.17

ACGTcount: A:0.51, C:0.12, G:0.19, T:0.19


Consensus pattern (22 bp):   
ACAAGGAAATAAGTTAATAACC

Found at i:338 original size:18 final size:19

Alignment explanation


    Indices: 302--342  Score: 57
    Period size: 19  Copynumber: 2.2  Consensus size: 19

        292 AAACCGATGC

                               
        302 CCTTCTTATTCTTCAAAAA
          1 CCTTCTTATTCTTCAAAAA

                      *         
        321 CCTT-TTATTTTTCCAAAAA
          1 CCTTCTTATTCTT-CAAAAA

               
        340 CCT
          1 CCT

        343 AAAAGGACAA


Statistics
Matches: 20,  Mismatches: 1, Indels: 2
        0.87            0.04        0.09

Matches are distributed among these distances:
  18    7  0.35
  19   13  0.65

ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44


Consensus pattern (19 bp):   
CCTTCTTATTCTTCAAAAA
Done.