Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024051.1 Corchorus olitorius cultivar O-4 contig24084, 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: 9305
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29


Found at i:1641 original size:15 final size:16

Alignment explanation


    Indices: 1617--1656  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

       1607 AGAAGTTGAA

                 *          
       1617 AGAAAGCAATTA-AAT
          1 AGAAAACAATTATAAT

                          * 
       1632 AGAAAACAATTATACT
          1 AGAAAACAATTATAAT

                     
       1648 AGAAAACAA
          1 AGAAAACAA

       1657 AACAAAGTAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   11  0.50
  16   11  0.50

ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17


Consensus pattern (16 bp):   
AGAAAACAATTATAAT

Found at i:7014 original size:18 final size:18

Alignment explanation


    Indices: 6991--7036  Score: 83
    Period size: 18  Copynumber: 2.6  Consensus size: 18

       6981 GCCTTGAAGT

                   *          
       6991 TTGTTCAGAAAATTCAGC
          1 TTGTTCACAAAATTCAGC

                              
       7009 TTGTTCACAAAATTCAGC
          1 TTGTTCACAAAATTCAGC

                      
       7027 TTGTTCACAA
          1 TTGTTCACAA

       7037 GCAAGTAGAA


Statistics
Matches: 27,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  18   27  1.00

ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35


Consensus pattern (18 bp):   
TTGTTCACAAAATTCAGC
Done.