Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01004405.1 Corchorus capsularis cultivar CVL-1 contig04413, 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, 623

Length: 1039
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.32


Found at i:389 original size:22 final size:22

Alignment explanation


    Indices: 336--380  Score: 81
    Period size: 22  Copynumber: 2.0  Consensus size: 22

        326 TTATTTTTAT

                   *              
        336 TAAATTTTAAATTCTATTTAAA
          1 TAAATTTAAAATTCTATTTAAA

                                  
        358 TAAATTTAAAATTCTATTTAAA
          1 TAAATTTAAAATTCTATTTAAA

             
        380 T
          1 T

        381 TCTATTAAAT


Statistics
Matches: 22,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   22  1.00

ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49


Consensus pattern (22 bp):   
TAAATTTAAAATTCTATTTAAA

Found at i:390 original size:10 final size:11

Alignment explanation


    Indices: 341--400  Score: 63
    Period size: 11  Copynumber: 5.6  Consensus size: 11

        331 TTTATTAAAT

                       
        341 TTTAAATTCTA
          1 TTTAAATTCTA

                    ** 
        352 TTTAAA-TAAA
          1 TTTAAATTCTA

                        
        362 TTTAAAATTCTA
          1 TTT-AAATTCTA

                       
        374 TTTAAATTCTA
          1 TTTAAATTCTA

                     * 
        385 -TTAAA-TCCA
          1 TTTAAATTCTA

                   
        394 TTTAAAT
          1 TTTAAAT

        401 ATTAAATCAA


Statistics
Matches: 40,  Mismatches: 5, Indels: 8
        0.75            0.09        0.15

Matches are distributed among these distances:
   9    3  0.08
  10   15  0.38
  11   17  0.43
  12    5  0.12

ACGTcount: A:0.43, C:0.08, G:0.00, T:0.48


Consensus pattern (11 bp):   
TTTAAATTCTA
Done.