Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021627.1 Corchorus olitorius cultivar O-4 contig21660, 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: 15621
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31


Found at i:9523 original size:12 final size:12

Alignment explanation


    Indices: 9506--9531  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

       9496 ACCCTTGCCT

                        
       9506 AAAAACTAGAAG
          1 AAAAACTAGAAG

                        
       9518 AAAAACTAGAAG
          1 AAAAACTAGAAG

              
       9530 AA
          1 AA

       9532 TATATCTAAA


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

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08


Consensus pattern (12 bp):   
AAAAACTAGAAG

Found at i:11510 original size:18 final size:18

Alignment explanation


    Indices: 11487--11527  Score: 82
    Period size: 18  Copynumber: 2.3  Consensus size: 18

      11477 AAGTGCACTG

                              
      11487 GCTCTACAGTGGCAACTT
          1 GCTCTACAGTGGCAACTT

                              
      11505 GCTCTACAGTGGCAACTT
          1 GCTCTACAGTGGCAACTT

                 
      11523 GCTCT
          1 GCTCT

      11528 TCCATCTCTG


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  18   23  1.00

ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29


Consensus pattern (18 bp):   
GCTCTACAGTGGCAACTT

Found at i:13049 original size:18 final size:18

Alignment explanation


    Indices: 13026--13061  Score: 63
    Period size: 18  Copynumber: 2.0  Consensus size: 18

      13016 CACCCTAACC

                     *        
      13026 CTAAAACTAGAAGAAAAA
          1 CTAAAACTAAAAGAAAAA

                              
      13044 CTAAAACTAAAAGAAAAA
          1 CTAAAACTAAAAGAAAAA

      13062 AAAGAAGAAG


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  18   17  1.00

ACGTcount: A:0.69, C:0.11, G:0.08, T:0.11


Consensus pattern (18 bp):   
CTAAAACTAAAAGAAAAA
Done.