Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014677.1 Corchorus capsularis cultivar CVL-1 contig14698, 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: 11534
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31


Found at i:841 original size:19 final size:19

Alignment explanation


    Indices: 817--855  Score: 69
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        807 TCTCTCTTTC

                    *          
        817 TTTTGGCTTATGATGTGTG
          1 TTTTGGCTAATGATGTGTG

                               
        836 TTTTGGCTAATGATGTGTG
          1 TTTTGGCTAATGATGTGTG

             
        855 T
          1 T

        856 CCTGTGATCT


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

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51


Consensus pattern (19 bp):   
TTTTGGCTAATGATGTGTG

Found at i:4370 original size:21 final size:21

Alignment explanation


    Indices: 4344--4393  Score: 82
    Period size: 21  Copynumber: 2.4  Consensus size: 21

       4334 GAAGAAGAAA

                         *  *    
       4344 AAGAAGAAAGTGAGAACGAGG
          1 AAGAAGAAAGTGAAAAAGAGG

                                 
       4365 AAGAAGAAAGTGAAAAAGAGG
          1 AAGAAGAAAGTGAAAAAGAGG

                    
       4386 AAGAAGAA
          1 AAGAAGAA

       4394 GAAGCTGTTG


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
  21   27  1.00

ACGTcount: A:0.60, C:0.02, G:0.34, T:0.04


Consensus pattern (21 bp):   
AAGAAGAAAGTGAAAAAGAGG

Found at i:4406 original size:18 final size:18

Alignment explanation


    Indices: 4385--4425  Score: 55
    Period size: 18  Copynumber: 2.3  Consensus size: 18

       4375 TGAAAAAGAG

                     *      * 
       4385 GAAGAAGAAGAAGCTGTT
          1 GAAGAAGAAAAAGCTGAT

                        *     
       4403 GAAGAAGAAAAATCTGAT
          1 GAAGAAGAAAAAGCTGAT

                 
       4421 GAAGA
          1 GAAGA

       4426 GGATGATGAA


Statistics
Matches: 20,  Mismatches: 3, Indels: 0
        0.87            0.13        0.00

Matches are distributed among these distances:
  18   20  1.00

ACGTcount: A:0.51, C:0.05, G:0.29, T:0.15


Consensus pattern (18 bp):   
GAAGAAGAAAAAGCTGAT
Done.