Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008695.1 Corchorus olitorius cultivar O-4 contig08722, 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: 11503
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34


Found at i:8380 original size:21 final size:19

Alignment explanation


    Indices: 8356--8399  Score: 52
    Period size: 19  Copynumber: 2.2  Consensus size: 19

       8346 ATTTGTAAAA

                                 
       8356 TAAATCAAATAATAAATATAT
          1 TAAAT-AAAT-ATAAATATAT

                     *   *     
       8377 TAAATAAATTTAAGTATAT
          1 TAAATAAATATAAATATAT

                
       8396 TAAA
          1 TAAA

       8400 CATTGAAAAA


Statistics
Matches: 21,  Mismatches: 2, Indels: 2
        0.84            0.08        0.08

Matches are distributed among these distances:
  19   12  0.57
  20    4  0.19
  21    5  0.24

ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36


Consensus pattern (19 bp):   
TAAATAAATATAAATATAT

Found at i:8470 original size:16 final size:16

Alignment explanation


    Indices: 8449--8483  Score: 52
    Period size: 16  Copynumber: 2.2  Consensus size: 16

       8439 AGATCCGAAA

                            
       8449 ACCCAAAATCCGAATG
          1 ACCCAAAATCCGAATG

                  *      *  
       8465 ACCCAAGATCCGAGTG
          1 ACCCAAAATCCGAATG

               
       8481 ACC
          1 ACC

       8484 TAAGGCCAAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.37, C:0.34, G:0.17, T:0.11


Consensus pattern (16 bp):   
ACCCAAAATCCGAATG

Found at i:11466 original size:2 final size:2

Alignment explanation


    Indices: 11459--11503  Score: 90
    Period size: 2  Copynumber: 22.5  Consensus size: 2

      11449 ATTAACTGGC

                                                                          
      11459 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

                
      11501 AT A
          1 AT A


Statistics
Matches: 43,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   43  1.00

ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49


Consensus pattern (2 bp):   
AT

Done.