Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01005453.1 Corchorus capsularis cultivar CVL-1 contig05471, 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: 7729
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35


Found at i:2205 original size:2 final size:2

Alignment explanation


    Indices: 2198--2230  Score: 66
    Period size: 2  Copynumber: 16.5  Consensus size: 2

       2188 AAATCTCTTA

                                                             
       2198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       2231 GTCGTTATAG


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   31  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:6189 original size:2 final size:2

Alignment explanation


    Indices: 6182--6212  Score: 62
    Period size: 2  Copynumber: 15.5  Consensus size: 2

       6172 ATGGTTCATC

                                                          
       6182 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A

       6213 CACACACACA


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   29  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:7309 original size:24 final size:24

Alignment explanation


    Indices: 7282--7329  Score: 78
    Period size: 24  Copynumber: 2.0  Consensus size: 24

       7272 ATTATAAATT

                                    
       7282 AATAATCATATTATCTTTAAAAAA
          1 AATAATCATATTATCTTTAAAAAA

                          *   *     
       7306 AATAATCATATTATTTTTTAAAAA
          1 AATAATCATATTATCTTTAAAAAA

       7330 GAAGAAGAAG


Statistics
Matches: 22,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
  24   22  1.00

ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42


Consensus pattern (24 bp):   
AATAATCATATTATCTTTAAAAAA
Done.