Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017140.1 Corchorus olitorius cultivar O-4 contig17173, 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: 6447
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31


Found at i:3084 original size:21 final size:21

Alignment explanation


    Indices: 3041--3095  Score: 65
    Period size: 21  Copynumber: 2.6  Consensus size: 21

       3031 CACCCATTCA

                        *  **    
       3041 CCGTGCCACCACTGGTTAAGC
          1 CCGTGCCACCACCGGCCAAGC

                              *  
       3062 CCGTGCCACCACCGGCCATGC
          1 CCGTGCCACCACCGGCCAAGC

                    *    
       3083 CCGTGCCATCACC
          1 CCGTGCCACCACC

       3096 ATTCCAAGCC


Statistics
Matches: 29,  Mismatches: 5, Indels: 0
        0.85            0.15        0.00

Matches are distributed among these distances:
  21   29  1.00

ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15


Consensus pattern (21 bp):   
CCGTGCCACCACCGGCCAAGC

Found at i:6292 original size:15 final size:16

Alignment explanation


    Indices: 6261--6300  Score: 64
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       6251 TTACTTTGCT

                            
       6261 TTGTTTTCTAGTTTAA
          1 TTGTTTTCTAGTTTAA

                            
       6277 TTGTTTTCTA-TTTAA
          1 TTGTTTTCTAGTTTAA

               *     
       6292 TTGCTTTCT
          1 TTGTTTTCT

       6301 GTCAATCTCT


Statistics
Matches: 23,  Mismatches: 1, Indels: 1
        0.92            0.04        0.04

Matches are distributed among these distances:
  15   13  0.57
  16   10  0.43

ACGTcount: A:0.15, C:0.10, G:0.10, T:0.65


Consensus pattern (16 bp):   
TTGTTTTCTAGTTTAA
Done.