Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013781.1 Corchorus olitorius cultivar O-4 contig13814, 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: 3434
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34


Found at i:780 original size:25 final size:25

Alignment explanation


    Indices: 751--805  Score: 101
    Period size: 25  Copynumber: 2.2  Consensus size: 25

        741 TGCTGCCGCG

                                     
        751 ACAGGGGAGCCTTCCGCAAGCAACA
          1 ACAGGGGAGCCTTCCGCAAGCAACA

                                     
        776 ACAGGGGAGCCTTCCGCAAGCAACA
          1 ACAGGGGAGCCTTCCGCAAGCAACA

            *    
        801 CCAGG
          1 ACAGG

        806 CTACTCCGCG


Statistics
Matches: 29,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  25   29  1.00

ACGTcount: A:0.31, C:0.33, G:0.29, T:0.07


Consensus pattern (25 bp):   
ACAGGGGAGCCTTCCGCAAGCAACA

Found at i:1429 original size:30 final size:29

Alignment explanation


    Indices: 1380--1436  Score: 80
    Period size: 30  Copynumber: 1.9  Consensus size: 29

       1370 TTAGGATTAG

                                         
       1380 TTATTTATGCTTTAATTTTCAA-TTTCCT
          1 TTATTTATGCTTTAATTTTCAAGTTTCCT

                            *            
       1408 TTATCTTATGTCTTTATTTTTCAAGTTTC
          1 TTAT-TTATG-CTTTAATTTTCAAGTTTC

       1437 ATGAATAAAC


Statistics
Matches: 25,  Mismatches: 1, Indels: 3
        0.86            0.03        0.10

Matches are distributed among these distances:
  28    4  0.16
  29    5  0.20
  30   12  0.48
  31    4  0.16

ACGTcount: A:0.19, C:0.14, G:0.05, T:0.61


Consensus pattern (29 bp):   
TTATTTATGCTTTAATTTTCAAGTTTCCT

Found at i:1748 original size:33 final size:33

Alignment explanation


    Indices: 1710--1775  Score: 114
    Period size: 33  Copynumber: 2.0  Consensus size: 33

       1700 ACCTAGGATA

                                *            
       1710 GAATTTGATTGTTTTTGATTTATCTTAATTTCC
          1 GAATTTGATTGTTTTTGATTGATCTTAATTTCC

                            *                
       1743 GAATTTGATTGTTTTTTATTGATCTTAATTTCC
          1 GAATTTGATTGTTTTTGATTGATCTTAATTTCC

       1776 CCAATTTTTG


Statistics
Matches: 31,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  33   31  1.00

ACGTcount: A:0.21, C:0.09, G:0.12, T:0.58


Consensus pattern (33 bp):   
GAATTTGATTGTTTTTGATTGATCTTAATTTCC
Done.