Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01007074.1 Corchorus capsularis cultivar CVL-1 contig07095, 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: 4600
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.29


Found at i:4485 original size:33 final size:33

Alignment explanation


    Indices: 4443--4551  Score: 130
    Period size: 33  Copynumber: 3.3  Consensus size: 33

       4433 AGCACTTGTG

                                             
       4443 ACCGGCCACGCGACTTGGAGATGCCCAACCATC
          1 ACCGGCCACGCGACTTGGAGATGCCCAACCATC

             *                        **     
       4476 ATCGGCCACGCGACTTGGAGATGCCCGGCCATC
          1 ACCGGCCACGCGACTTGGAGATGCCCAACCATC

                     *    *   *       **     
       4509 ACCGGCCACACGACATGGCGATGCCCGGCCA-C
          1 ACCGGCCACGCGACTTGGAGATGCCCAACCATC

                       
       4541 AACCGGCCACG
          1 -ACCGGCCACG

       4552 TGATTCGGCC


Statistics
Matches: 67,  Mismatches: 8, Indels: 2
        0.87            0.10        0.03

Matches are distributed among these distances:
  32    1  0.01
  33   66  0.99

ACGTcount: A:0.22, C:0.40, G:0.28, T:0.10


Consensus pattern (33 bp):   
ACCGGCCACGCGACTTGGAGATGCCCAACCATC

Found at i:4548 original size:66 final size:66

Alignment explanation


    Indices: 4443--4584  Score: 155
    Period size: 66  Copynumber: 2.2  Consensus size: 66

       4433 AGCACTTGTG

                     *    *                   *                  *           
       4443 ACCGGCCACGCGACTTGGAGATGCCCAACCATCATCGGCCACGCGACTT-GGAGATGCCCGGCCA
          1 ACCGGCCACACGACATGGAGATGCCCAACCATCACCGGCCACGCGA-TTCGGACATGCCCGGCCA

               
       4507 TC-
         65 -CA

                              *       **                *       *            
       4509 ACCGGCCACACGACATGGCGATGCCCGGCCA-CAACCGGCCACGTGATTCGGCCATGCCCGGCCA
          1 ACCGGCCACACGACATGGAGATGCCCAACCATC-ACCGGCCACGCGATTCGGACATGCCCGGCCA

              
       4573 CA
         65 CA

                      
       4575 ACCGGCCACA
          1 ACCGGCCACA

       4585 TGATCCTTTA


Statistics
Matches: 64,  Mismatches: 9, Indels: 6
        0.81            0.11        0.08

Matches are distributed among these distances:
  65    4  0.06
  66   60  0.94

ACGTcount: A:0.22, C:0.41, G:0.27, T:0.11


Consensus pattern (66 bp):   
ACCGGCCACACGACATGGAGATGCCCAACCATCACCGGCCACGCGATTCGGACATGCCCGGCCAC
A
Done.