Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01005707.1 Corchorus olitorius cultivar O-4 contig05731, 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, 683

Length: 1139
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30


Found at i:103 original size:21 final size:21

Alignment explanation


    Indices: 77--161  Score: 170
    Period size: 21  Copynumber: 4.0  Consensus size: 21

         67 AAATTCTGAT

                                 
         77 ACAAGATACTTATTAGATCGA
          1 ACAAGATACTTATTAGATCGA

                                 
         98 ACAAGATACTTATTAGATCGA
          1 ACAAGATACTTATTAGATCGA

                                 
        119 ACAAGATACTTATTAGATCGA
          1 ACAAGATACTTATTAGATCGA

                                 
        140 ACAAGATACTTATTAGATCGA
          1 ACAAGATACTTATTAGATCGA

             
        161 A
          1 A

        162 TAAGTATATT


Statistics
Matches: 64,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  21   64  1.00

ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28


Consensus pattern (21 bp):   
ACAAGATACTTATTAGATCGA

Found at i:832 original size:19 final size:19

Alignment explanation


    Indices: 808--847  Score: 62
    Period size: 19  Copynumber: 2.1  Consensus size: 19

        798 CGCTTTTACT

                    *      *   
        808 TTATTTTATAAATTTCTAA
          1 TTATTTTAGAAATTTATAA

                               
        827 TTATTTTAGAAATTTATAA
          1 TTATTTTAGAAATTTATAA

              
        846 TT
          1 TT

        848 TCTGGATTAT


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57


Consensus pattern (19 bp):   
TTATTTTAGAAATTTATAA

Found at i:921 original size:13 final size:14

Alignment explanation


    Indices: 883--925  Score: 77
    Period size: 14  Copynumber: 3.1  Consensus size: 14

        873 TATATGATAT

                 *        
        883 ATGATAATTTTTGA
          1 ATGATGATTTTTGA

                          
        897 ATGATGATTTTTGA
          1 ATGATGATTTTTGA

                          
        911 ATGATGATTTTTGA
          1 ATGATGATTTTTGA

             
        925 A
          1 A

        926 CTTTCCATAT


Statistics
Matches: 28,  Mismatches: 1, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  14   28  1.00

ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49


Consensus pattern (14 bp):   
ATGATGATTTTTGA
Done.