Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01008060.1 Corchorus capsularis cultivar CVL-1 contig08081, 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: 4647
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31


Found at i:2552 original size:68 final size:68

Alignment explanation


    Indices: 2443--2783  Score: 619
    Period size: 68  Copynumber: 5.0  Consensus size: 68

       2433 ACTCAATTTC

                                         *                        *          
       2443 ATTAATAAGTAAAAGAAATGGTATAACCAATTTGCAAAGGATCATACAACCAAGGTGACATATCC
          1 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC

               
       2508 TCT
         66 TCT

                    *                                                        
       2511 ATTAATAAATAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC
          1 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC

               
       2576 TCT
         66 TCT

                                                                  *          
       2579 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGGTGACATATCC
          1 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC

               
       2644 TCT
         66 TCT

                    *                                    *                   
       2647 ATTAATAAATAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATGCAACCAAGATGACATATCC
          1 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC

               
       2712 TCT
         66 TCT

                                                         *                   
       2715 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATGCAACCAAGATGACATATCC
          1 ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC

               
       2780 TCT
         66 TCT

             
       2783 A
          1 A

       2784 CCCATACAAT


Statistics
Matches: 264,  Mismatches: 9, Indels: 0
        0.97            0.03        0.00

Matches are distributed among these distances:
  68  264  1.00

ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25


Consensus pattern (68 bp):   
ATTAATAAGTAAAAGAAATGGTATAACCAGTTTGCAAAGGATCATACAACCAAGATGACATATCC
TCT

Found at i:2941 original size:15 final size:15

Alignment explanation


    Indices: 2921--2949  Score: 58
    Period size: 15  Copynumber: 1.9  Consensus size: 15

       2911 TTGAATTCCA

                           
       2921 ATTCAAATCCAACAG
          1 ATTCAAATCCAACAG

                          
       2936 ATTCAAATCCAACA
          1 ATTCAAATCCAACA

       2950 AGATGATAAG


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  15   14  1.00

ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21


Consensus pattern (15 bp):   
ATTCAAATCCAACAG
Done.