Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017942.1 Corchorus olitorius cultivar O-4 contig17975, 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: 18141
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32


Found at i:8526 original size:13 final size:14

Alignment explanation


    Indices: 8506--8538  Score: 50
    Period size: 13  Copynumber: 2.4  Consensus size: 14

       8496 CTTAGAGCAG

                     *    
       8506 CAGCAAGGCTGCCC
          1 CAGCAAGGCCGCCC

                          
       8520 C-GCAAGGCCGCCC
          1 CAGCAAGGCCGCCC

                  
       8533 CAGCAA
          1 CAGCAA

       8539 CAGCAACAAG


Statistics
Matches: 17,  Mismatches: 1, Indels: 2
        0.85            0.05        0.10

Matches are distributed among these distances:
  13   12  0.71
  14    5  0.29

ACGTcount: A:0.24, C:0.45, G:0.27, T:0.03


Consensus pattern (14 bp):   
CAGCAAGGCCGCCC

Found at i:10071 original size:30 final size:28

Alignment explanation


    Indices: 10028--10084  Score: 87
    Period size: 30  Copynumber: 2.0  Consensus size: 28

      10018 TTAGGATTAG

                                  *     
      10028 TTATTTATGCTTTAATTTTCAATTTTCT
          1 TTATTTATGCTTTAATTTTCAAGTTTCT

                                         
      10056 TTATCTTATGTCTTTAATTTTCAAGTTTC
          1 TTAT-TTATG-CTTTAATTTTCAAGTTTC

      10085 ATTAATAAAC


Statistics
Matches: 26,  Mismatches: 1, Indels: 2
        0.90            0.03        0.07

Matches are distributed among these distances:
  28    4  0.15
  29    5  0.19
  30   17  0.65

ACGTcount: A:0.21, C:0.12, G:0.05, T:0.61


Consensus pattern (28 bp):   
TTATTTATGCTTTAATTTTCAAGTTTCT
Done.