Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01014104.1 Corchorus capsularis cultivar CVL-1 contig14125, 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: 10647
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32


Found at i:1663 original size:13 final size:13

Alignment explanation


    Indices: 1627--1665  Score: 69
    Period size: 13  Copynumber: 3.0  Consensus size: 13

       1617 ATGCGCGAAC

                      *  
       1627 AGCACCCATGACA
          1 AGCACCCATGCCA

                         
       1640 AGCACCCATGCCA
          1 AGCACCCATGCCA

                         
       1653 AGCACCCATGCCA
          1 AGCACCCATGCCA

       1666 TACCGATGTC


Statistics
Matches: 25,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  13   25  1.00

ACGTcount: A:0.33, C:0.44, G:0.15, T:0.08


Consensus pattern (13 bp):   
AGCACCCATGCCA

Found at i:9490 original size:33 final size:33

Alignment explanation


    Indices: 9448--9512  Score: 94
    Period size: 33  Copynumber: 2.0  Consensus size: 33

       9438 CCGGCTATGC

                *                   *        
       9448 GACTTGGAGAAGCCCGGCCAACACTGGCCACGT
          1 GACTCGGAGAAGCCCGGCCAACACCGGCCACGT

                      *         *           
       9481 GACTCGGAGATGCCCGGCCATCACCGGCCACG
          1 GACTCGGAGAAGCCCGGCCAACACCGGCCACG

       9513 CGACATGGAC


Statistics
Matches: 28,  Mismatches: 4, Indels: 0
        0.88            0.12        0.00

Matches are distributed among these distances:
  33   28  1.00

ACGTcount: A:0.22, C:0.37, G:0.31, T:0.11


Consensus pattern (33 bp):   
GACTCGGAGAAGCCCGGCCAACACCGGCCACGT

Found at i:9531 original size:33 final size:32

Alignment explanation


    Indices: 9459--9543  Score: 91
    Period size: 33  Copynumber: 2.6  Consensus size: 32

       9449 ACTTGGAGAA

                         *       *        *  
       9459 GCCCGGCCAACACTGGCCACGTGACTCGGAGAT
          1 GCCCGGCC-ACACCGGCCACGCGACTCGGACAT

                                              
       9492 GCCCGGCCATCACCGGCCACGCGACAT-GGACAT
          1 GCCCGGCCA-CACCGGCCACGCGAC-TCGGACAT

             *                 
       9525 GTCCGGCCACAACCGGCCA
          1 GCCCGGCCAC-ACCGGCCA

       9544 TCGCTTGGCG


Statistics
Matches: 45,  Mismatches: 4, Indels: 6
        0.82            0.07        0.11

Matches are distributed among these distances:
  32    2  0.04
  33   42  0.93
  34    1  0.02

ACGTcount: A:0.21, C:0.41, G:0.28, T:0.09


Consensus pattern (32 bp):   
GCCCGGCCACACCGGCCACGCGACTCGGACAT
Done.