Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002538.1 Corchorus olitorius cultivar O-4 contig02539, 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: 2608
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34


Found at i:212 original size:32 final size:32

Alignment explanation


    Indices: 171--242  Score: 92
    Period size: 32  Copynumber: 2.2  Consensus size: 32

        161 TTCAAAGAAC

                          *          *  *  * 
        171 ATTTTGTCCTAT-TTTGTCAAAATTTGAGGGTT
          1 ATTTTGTCCT-TCTATGTCAAAATTCGAAGGCT

                                            
        203 ATTTTGTCCTTCTATGTCAAAATTCGAAGGCT
          1 ATTTTGTCCTTCTATGTCAAAATTCGAAGGCT

                    
        235 ATTTTGTC
          1 ATTTTGTC

        243 TATCAATTTG


Statistics
Matches: 35,  Mismatches: 4, Indels: 2
        0.85            0.10        0.05

Matches are distributed among these distances:
  31    1  0.03
  32   34  0.97

ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47


Consensus pattern (32 bp):   
ATTTTGTCCTTCTATGTCAAAATTCGAAGGCT

Found at i:451 original size:14 final size:16

Alignment explanation


    Indices: 420--456  Score: 51
    Period size: 14  Copynumber: 2.4  Consensus size: 16

        410 AGCTGAAATA

                            
        420 AAAAAATAAAATTAAT
          1 AAAAAATAAAATTAAT

                     *      
        436 AAAAAA-AATATT-AT
          1 AAAAAATAAAATTAAT

                   
        450 AAAAAAT
          1 AAAAAAT

        457 TAATCGATTA


Statistics
Matches: 19,  Mismatches: 1, Indels: 3
        0.83            0.04        0.13

Matches are distributed among these distances:
  14    8  0.42
  15    5  0.26
  16    6  0.32

ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24


Consensus pattern (16 bp):   
AAAAAATAAAATTAAT
Done.