Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018347.1 Corchorus olitorius cultivar O-4 contig18380, 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: 3936
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26


Found at i:3443 original size:21 final size:21

Alignment explanation


    Indices: 3419--3487  Score: 93
    Period size: 21  Copynumber: 3.3  Consensus size: 21

       3409 GTCCAAAGCA

                         *       
       3419 GTGCCACCACCGATTAAGCCC
          1 GTGCCACCACCGACTAAGCCC

                        *        
       3440 GTGCCACCACCGGCTAAGCCC
          1 GTGCCACCACCGACTAAGCCC

                        * * *    
       3461 GTGCCACCACCGGCCATGCCC
          1 GTGCCACCACCGACTAAGCCC

                  
       3482 GTGCCA
          1 GTGCCA

       3488 TCGCCATTCC


Statistics
Matches: 44,  Mismatches: 4, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  21   44  1.00

ACGTcount: A:0.19, C:0.46, G:0.23, T:0.12


Consensus pattern (21 bp):   
GTGCCACCACCGACTAAGCCC

Found at i:3873 original size:13 final size:14

Alignment explanation


    Indices: 3844--3873  Score: 53
    Period size: 14  Copynumber: 2.2  Consensus size: 14

       3834 TATCTTTTTA

                          
       3844 ATTTTCCTTGCATT
          1 ATTTTCCTTGCATT

                          
       3858 ATTTTCCTTG-ATT
          1 ATTTTCCTTGCATT

               
       3871 ATT
          1 ATT

       3874 GTTTTAATTG


Statistics
Matches: 16,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  13    6  0.38
  14   10  0.62

ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60


Consensus pattern (14 bp):   
ATTTTCCTTGCATT
Done.