Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014587.1 Corchorus capsularis cultivar CVL-1 contig14608, 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: 11700
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31


Found at i:401 original size:12 final size:12

Alignment explanation


    Indices: 384--416  Score: 57
    Period size: 12  Copynumber: 2.8  Consensus size: 12

        374 ATACAAACAC

                        
        384 ATGAGAACAAGA
          1 ATGAGAACAAGA

                   *    
        396 ATGAGAATAAGA
          1 ATGAGAACAAGA

                     
        408 ATGAGAACA
          1 ATGAGAACA

        417 TAGATATGGA


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  12   19  1.00

ACGTcount: A:0.58, C:0.06, G:0.24, T:0.12


Consensus pattern (12 bp):   
ATGAGAACAAGA

Found at i:5827 original size:29 final size:28

Alignment explanation


    Indices: 5773--5830  Score: 71
    Period size: 28  Copynumber: 2.0  Consensus size: 28

       5763 TCTTTTTTTT

                                 *      
       5773 TCCTTTCTTTTTAGGTTTAACCAAGGTA
          1 TCCTTTCTTTTTAGGTTTAACAAAGGTA

                        **      *        
       5801 TCCTTTCTTTTTTTGTTTAGTCAAAGGTA
          1 TCCTTTCTTTTTAGGTTTA-ACAAAGGTA

             
       5830 T
          1 T

       5831 AACTTATTTA


Statistics
Matches: 25,  Mismatches: 4, Indels: 1
        0.83            0.13        0.03

Matches are distributed among these distances:
  28   17  0.68
  29    8  0.32

ACGTcount: A:0.19, C:0.16, G:0.14, T:0.52


Consensus pattern (28 bp):   
TCCTTTCTTTTTAGGTTTAACAAAGGTA
Done.