Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010661.1 Corchorus olitorius cultivar O-4 contig10693, 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: 4180
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.36


Found at i:691 original size:25 final size:25

Alignment explanation


    Indices: 663--764  Score: 143
    Period size: 25  Copynumber: 4.1  Consensus size: 25

        653 GAGGAAAATC

                                     
        663 AAACGGCCACATAGTTGGTCGTGAG
          1 AAACGGCCACATAGTTGGTCGTGAG

                *                    
        688 AAACAGCCACATAGTTGGTCGTGAG
          1 AAACGGCCACATAGTTGGTCGTGAG

             **                      
        713 ATTCGGCCACATAGTTGGTCGTGAG
          1 AAACGGCCACATAGTTGGTCGTGAG

             **                    * 
        738 ATTCGGCCACATAG-TGGTCGTGGG
          1 AAACGGCCACATAGTTGGTCGTGAG

               
        762 AAA
          1 AAA

        765 AGACCAAAGC


Statistics
Matches: 70,  Mismatches: 7, Indels: 1
        0.90            0.09        0.01

Matches are distributed among these distances:
  24   10  0.14
  25   60  0.86

ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23


Consensus pattern (25 bp):   
AAACGGCCACATAGTTGGTCGTGAG

Found at i:1737 original size:17 final size:17

Alignment explanation


    Indices: 1717--1752  Score: 56
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       1707 TATTAAATTT

                              
       1717 TATAT-TAAGAAAAATAA
          1 TATATATAA-AAAAATAA

                             
       1734 TATATATAAAAAAATAA
          1 TATATATAAAAAAATAA

              
       1751 TA
          1 TA

       1753 AGTTTAGAAT


Statistics
Matches: 18,  Mismatches: 0, Indels: 2
        0.90            0.00        0.10

Matches are distributed among these distances:
  17   15  0.83
  18    3  0.17

ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31


Consensus pattern (17 bp):   
TATATATAAAAAAATAA
Done.