Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01013474.1 Corchorus olitorius cultivar O-4 contig13507, 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: 7014
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33


Found at i:68 original size:16 final size:16

Alignment explanation


    Indices: 47--78  Score: 64
    Period size: 16  Copynumber: 2.0  Consensus size: 16

         37 AGCTCTTATA

                            
         47 TGATTTCTAGTAAAAT
          1 TGATTTCTAGTAAAAT

                            
         63 TGATTTCTAGTAAAAT
          1 TGATTTCTAGTAAAAT

         79 CCAGAACCGT


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  16   16  1.00

ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44


Consensus pattern (16 bp):   
TGATTTCTAGTAAAAT

Found at i:1661 original size:17 final size:17

Alignment explanation


    Indices: 1639--1674  Score: 63
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1629 TTTTTTTGGT

                          *  
       1639 ATTCTATACAAAACTCC
          1 ATTCTATACAAAACCCC

                             
       1656 ATTCTATACAAAACCCC
          1 ATTCTATACAAAACCCC

              
       1673 AT
          1 AT

       1675 AAGGATAAAT


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  17   18  1.00

ACGTcount: A:0.42, C:0.31, G:0.00, T:0.28


Consensus pattern (17 bp):   
ATTCTATACAAAACCCC

Found at i:6948 original size:33 final size:33

Alignment explanation


    Indices: 6926--7000  Score: 96
    Period size: 33  Copynumber: 2.3  Consensus size: 33

       6916 CTGAGGTGTG

                                   * *       
       6926 AAACGCCGCTATTTTAGTGGCGTTTTAGAGCTC
          1 AAACGCCGCTATTTTAGTGGCGTCTGAGAGCTC

             *                     * *       
       6959 AGACGCCGCTATTTTAGTGGCGTTTCAGAGCTC
          1 AAACGCCGCTATTTTAGTGGCGTCTGAGAGCTC

             *       
       6992 AGACGCCGC
          1 AAACGCCGC

       7001 CATATATAGT


Statistics
Matches: 40,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  33   40  1.00

ACGTcount: A:0.20, C:0.25, G:0.27, T:0.28


Consensus pattern (33 bp):   
AAACGCCGCTATTTTAGTGGCGTCTGAGAGCTC
Done.