Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013243.1 Corchorus olitorius cultivar O-4 contig13276, 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: 10983
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33


Found at i:6865 original size:59 final size:59

Alignment explanation


    Indices: 6799--6917  Score: 220
    Period size: 59  Copynumber: 2.0  Consensus size: 59

       6789 GGATTTTGGG

                                                                       
       6799 ATGAGATAAAAATCCACACCAAAAACGCTCGTCGCAAATATTTTAGGGAGGGATTTCGA
          1 ATGAGATAAAAATCCACACCAAAAACGCTCGTCGCAAATATTTTAGGGAGGGATTTCGA

                             *       *                                 
       6858 ATGAGATAAAAATCCACGCCAAAAATGCTCGTCGCAAATATTTTAGGGAGGGATTTCGA
          1 ATGAGATAAAAATCCACACCAAAAACGCTCGTCGCAAATATTTTAGGGAGGGATTTCGA

             
       6917 A
          1 A

       6918 ATCCCTCCCT


Statistics
Matches: 58,  Mismatches: 2, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  59   58  1.00

ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23


Consensus pattern (59 bp):   
ATGAGATAAAAATCCACACCAAAAACGCTCGTCGCAAATATTTTAGGGAGGGATTTCGA

Found at i:7420 original size:21 final size:21

Alignment explanation


    Indices: 7394--7464  Score: 142
    Period size: 21  Copynumber: 3.4  Consensus size: 21

       7384 ACCCGAATAA

                                 
       7394 CCCAAGAAGATAACCCGATGG
          1 CCCAAGAAGATAACCCGATGG

                                 
       7415 CCCAAGAAGATAACCCGATGG
          1 CCCAAGAAGATAACCCGATGG

                                 
       7436 CCCAAGAAGATAACCCGATGG
          1 CCCAAGAAGATAACCCGATGG

                    
       7457 CCCAAGAA
          1 CCCAAGAA

       7465 TATTATAAAC


Statistics
Matches: 50,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   50  1.00

ACGTcount: A:0.39, C:0.30, G:0.23, T:0.08


Consensus pattern (21 bp):   
CCCAAGAAGATAACCCGATGG

Found at i:8611 original size:13 final size:13

Alignment explanation


    Indices: 8595--8632  Score: 76
    Period size: 13  Copynumber: 2.9  Consensus size: 13

       8585 AAATTGTATC

                         
       8595 TACAAATACACAG
          1 TACAAATACACAG

                         
       8608 TACAAATACACAG
          1 TACAAATACACAG

                        
       8621 TACAAATACACA
          1 TACAAATACACA

       8633 AAAAATTTAT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   25  1.00

ACGTcount: A:0.55, C:0.24, G:0.05, T:0.16


Consensus pattern (13 bp):   
TACAAATACACAG
Done.