Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01003408.1 Corchorus capsularis cultivar CVL-1 contig03416, 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, 768

Length: 1281
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:560 original size:33 final size:33

Alignment explanation


    Indices: 522--628  Score: 126
    Period size: 33  Copynumber: 3.2  Consensus size: 33

        512 GGCGCGAATG

                    *            *           
        522 ACCGGCCATGCGACTTGGAGAAGCCTGGCCAAC
          1 ACCGGCCACGCGACTTGGAGATGCCTGGCCAAC

                           *         *     * 
        555 ACCGGCCACGCGACTCGGAGATGCCCGGCCATC
          1 ACCGGCCACGCGACTTGGAGATGCCTGGCCAAC

                          *    *   *         
        588 ACCGGCCACGCGACATGGACATGTCTGGCC-AC
          1 ACCGGCCACGCGACTTGGAGATGCCTGGCCAAC

                     
        620 AACCGGCCA
          1 -ACCGGCCA

        629 TCGTTTGGCA


Statistics
Matches: 62,  Mismatches: 11, Indels: 2
        0.83            0.15        0.03

Matches are distributed among these distances:
  32    1  0.02
  33   61  0.98

ACGTcount: A:0.22, C:0.38, G:0.29, T:0.10


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGATGCCTGGCCAAC

Found at i:652 original size:33 final size:33

Alignment explanation


    Indices: 615--702  Score: 158
    Period size: 33  Copynumber: 2.7  Consensus size: 33

        605 GACATGTCTG

                             *               
        615 GCCACAACCGGCCATCGTTTGGCACACCAACCA
          1 GCCACAACCGGCCATCGATTGGCACACCAACCA

                             *               
        648 GCCACAACCGGCCATCGCTTGGCACACCAACCA
          1 GCCACAACCGGCCATCGATTGGCACACCAACCA

                                  
        681 GCCACAACCGGCCATCGATTGG
          1 GCCACAACCGGCCATCGATTGG

        703 GCCATCCGGA


Statistics
Matches: 53,  Mismatches: 2, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  33   53  1.00

ACGTcount: A:0.26, C:0.42, G:0.20, T:0.11


Consensus pattern (33 bp):   
GCCACAACCGGCCATCGATTGGCACACCAACCA
Done.