Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024843.1 Corchorus olitorius cultivar O-4 contig24876, 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: 8785
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34


Found at i:4743 original size:128 final size:127

Alignment explanation


    Indices: 4504--4743  Score: 286
    Period size: 128  Copynumber: 1.9  Consensus size: 127

       4494 AAAGTGCATT

                                        *              *    *                
       4504 GCACTCTTTTTCCCTTATGATCGGTTTTGTCCCACAAGGTTTTTCGACTTAAGGTTTTTAATGAG
          1 GCACTCTTTTTCCCTTATGATCGGTTTTATCCCACAAGGTTTTCCGACATAAGGTTTTTAATGAG

                *  *       *               **       **                     
       4569 GCAACAATAGCACATTTAGATGTAATTGTCCTGAAGACATTTACTTGGACTTAAATTGCTATA
         66 GCAAAAAGAGCACATGTAGA-GTAATTGTCCAAAAGACATGGACTTGGACTTAAATTGCTATA

                            *  *               **                            
       4632 GCACTCTTTTTCCCTTTTGTTCGGTTTTATCCCACTGGGTTTTCCGACATAAGGTTTTTAATGAG
          1 GCACTCTTTTTCCCTTATGATCGGTTTTATCCCACAAGGTTTTCCGACATAAGGTTTTTAATGAG

                                    *    *                   
       4697 GCAATAAAGAGCACATGTA-A-TATTTGTTCAAAAGACAAATGGACTTG
         66 GCAA-AAAGAGCACATGTAGAGTAATTGTCCAAAAGAC--ATGGACTTG

       4744 ATATTCTGCA


Statistics
Matches: 93,  Mismatches: 16, Indels: 6
        0.81            0.14        0.05

Matches are distributed among these distances:
 126   12  0.13
 128   70  0.75
 129   11  0.12

ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38


Consensus pattern (127 bp):   
GCACTCTTTTTCCCTTATGATCGGTTTTATCCCACAAGGTTTTCCGACATAAGGTTTTTAATGAG
GCAAAAAGAGCACATGTAGAGTAATTGTCCAAAAGACATGGACTTGGACTTAAATTGCTATA
Done.