Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005302.1 Corchorus capsularis cultivar CVL-1 contig05320, 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: 7165
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30


Found at i:3668 original size:4 final size:4

Alignment explanation


    Indices: 3659--3721  Score: 63
    Period size: 4  Copynumber: 15.8  Consensus size: 4

       3649 TATGTGAGTG

                           *    *    *         *      *       *        
       3659 TATA TATA TATA CATA CATA CATA TATA CATA TACA TATA CATA TATA
          1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA

            *                 
       3707 CATA TATA TATA TAT
          1 TATA TATA TATA TAT

       3722 TCCACTAAAA


Statistics
Matches: 49,  Mismatches: 10, Indels: 0
        0.83            0.17        0.00

Matches are distributed among these distances:
   4   49  1.00

ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40


Consensus pattern (4 bp):   
TATA

Found at i:3670 original size:6 final size:6

Alignment explanation


    Indices: 3659--3721  Score: 63
    Period size: 6  Copynumber: 10.5  Consensus size: 6

       3649 TATGTGAGTG

                          *   *    *        *      *      *        
       3659 TATATA TATATA CATACA TACATA TATACA TATACA TATACA TATATA
          1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA

            *                
       3707 CATATA TATATA TAT
          1 TATATA TATATA TAT

       3722 TCCACTAAAA


Statistics
Matches: 47,  Mismatches: 10, Indels: 0
        0.82            0.18        0.00

Matches are distributed among these distances:
   6   47  1.00

ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40


Consensus pattern (6 bp):   
TATATA

Found at i:3711 original size:8 final size:8

Alignment explanation


    Indices: 3659--3721  Score: 71
    Period size: 8  Copynumber: 8.4  Consensus size: 8

       3649 TATGTGAGTG

                *   
       3659 TATATATA
          1 TATACATA

                    
       3667 TATACATA
          1 TATACATA

            *       
       3675 CATACATA
          1 TATACATA

                    
       3683 TATAC--A
          1 TATACATA

                    
       3689 TATAC--A
          1 TATACATA

                    
       3695 TATACATA
          1 TATACATA

                    
       3703 TATACATA
          1 TATACATA

                *   
       3711 TATATATA
          1 TATACATA

               
       3719 TAT
          1 TAT

       3722 TCCACTAAAA


Statistics
Matches: 49,  Mismatches: 4, Indels: 4
        0.86            0.07        0.07

Matches are distributed among these distances:
   6   12  0.24
   8   37  0.76

ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40


Consensus pattern (8 bp):   
TATACATA
Done.