Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014782.1 Corchorus capsularis cultivar CVL-1 contig14803, 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: 11172
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32


Found at i:525 original size:25 final size:25

Alignment explanation


    Indices: 510--625  Score: 196
    Period size: 25  Copynumber: 4.6  Consensus size: 25

        500 CGCTCATGTT

                     *               
        510 CTTGCGTTTGGCAAACGAGCCTGTG
          1 CTTGCGTTTAGCAAACGAGCCTGTG

                                     
        535 CTTGCGTTTAGCAAACGAGCCTGTG
          1 CTTGCGTTTAGCAAACGAGCCTGTG

                                    *
        560 CTTGCGTTTAGCAAACGAGCCTGTA
          1 CTTGCGTTTAGCAAACGAGCCTGTG

                                *    
        585 CTTGCGTTTAGCAAACGAGCATGTG
          1 CTTGCGTTTAGCAAACGAGCCTGTG

                       *    
        610 CTTGCGTTTAGAAAAC
          1 CTTGCGTTTAGCAAAC

        626 ACATAGGCTA


Statistics
Matches: 86,  Mismatches: 5, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  25   86  1.00

ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28


Consensus pattern (25 bp):   
CTTGCGTTTAGCAAACGAGCCTGTG

Found at i:5079 original size:15 final size:15

Alignment explanation


    Indices: 5056--5089  Score: 50
    Period size: 15  Copynumber: 2.3  Consensus size: 15

       5046 TTCTCTACAG

                           
       5056 CTTCCTTCAAAACTT
          1 CTTCCTTCAAAACTT

                *      *   
       5071 CTTCTTTCAAAGCTT
          1 CTTCCTTCAAAACTT

                
       5086 CTTC
          1 CTTC

       5090 ATCGATTTCA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  15   17  1.00

ACGTcount: A:0.21, C:0.32, G:0.03, T:0.44


Consensus pattern (15 bp):   
CTTCCTTCAAAACTT

Found at i:10732 original size:11 final size:11

Alignment explanation


    Indices: 10713--10743  Score: 53
    Period size: 11  Copynumber: 2.8  Consensus size: 11

      10703 TGTCATTGAA

                *      
      10713 TCTCTATTAGC
          1 TCTCAATTAGC

                       
      10724 TCTCAATTAGC
          1 TCTCAATTAGC

                     
      10735 TCTCAATTA
          1 TCTCAATTA

      10744 AGTAAAGAAA


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  11   19  1.00

ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42


Consensus pattern (11 bp):   
TCTCAATTAGC
Done.