Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024810.1 Corchorus olitorius cultivar O-4 contig24843, 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: 11933
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33


Found at i:1429 original size:21 final size:21

Alignment explanation


    Indices: 1402--1450  Score: 80
    Period size: 21  Copynumber: 2.3  Consensus size: 21

       1392 ATCAAAGGGT

                                 
       1402 ATGGCACGGGCTTAACCGGTG
          1 ATGGCACGGGCTTAACCGGTG

            *         *          
       1423 GTGGCACGGGGTTAACCGGTG
          1 ATGGCACGGGCTTAACCGGTG

                   
       1444 ATGGCAC
          1 ATGGCAC

       1451 AGTGAATGGC


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   25  1.00

ACGTcount: A:0.18, C:0.22, G:0.41, T:0.18


Consensus pattern (21 bp):   
ATGGCACGGGCTTAACCGGTG

Found at i:5471 original size:16 final size:15

Alignment explanation


    Indices: 5430--5458  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

       5420 GCAGAGATTG

                           
       5430 AAAGAAAACAATTAA
          1 AAAGAAAACAATTAA

                          
       5445 AAAGAAAACAATTA
          1 AAAGAAAACAATTA

       5459 TACTAGAAAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14


Consensus pattern (15 bp):   
AAAGAAAACAATTAA

Found at i:6673 original size:10 final size:10

Alignment explanation


    Indices: 6658--6687  Score: 51
    Period size: 10  Copynumber: 3.0  Consensus size: 10

       6648 TTAGGACTAG

                      
       6658 AAGCGGGAAT
          1 AAGCGGGAAT

                      
       6668 AAGCGGGAAT
          1 AAGCGGGAAT

                 *    
       6678 AAGCGAGAAT
          1 AAGCGGGAAT

       6688 TGGATATCTC


Statistics
Matches: 19,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  10   19  1.00

ACGTcount: A:0.43, C:0.10, G:0.37, T:0.10


Consensus pattern (10 bp):   
AAGCGGGAAT
Done.