Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019229.1 Corchorus olitorius cultivar O-4 contig19262, 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: 5066
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32


Found at i:3841 original size:1 final size:1

Alignment explanation


    Indices: 3835--3862  Score: 56
    Period size: 1  Copynumber: 28.0  Consensus size: 1

       3825 CTTTACTAAC

                                        
       3835 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA

       3863 CACTGTCAAG


Statistics
Matches: 27,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   1   27  1.00

ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00


Consensus pattern (1 bp):   
A

Found at i:4845 original size:31 final size:31

Alignment explanation


    Indices: 4752--4852  Score: 98
    Period size: 31  Copynumber: 3.3  Consensus size: 31

       4742 AAGTACCTAA

                     *      *              
       4752 TTAGTCCCTGTACTATAGAAAAAAGATCAAT
          1 TTAGTCCCTCTACTATTGAAAAAAGATCAAT

                  *   * *    *   ***       
       4783 TTAGTCTCTCCATTA-TCAAATCTG-TCAAT
          1 TTAGTCCCTCTACTATTGAAAAAAGATCAAT

                                  *        
       4812 TTAGTCCCTCTACTATTGAAAAGAGATCAAT
          1 TTAGTCCCTCTACTATTGAAAAAAGATCAAT

                      
       4843 TTAGTCCCTC
          1 TTAGTCCCTC

       4853 CGTGAAATGG


Statistics
Matches: 52,  Mismatches: 16, Indels: 4
        0.72            0.22        0.06

Matches are distributed among these distances:
  29   17  0.33
  30    9  0.17
  31   26  0.50

ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35


Consensus pattern (31 bp):   
TTAGTCCCTCTACTATTGAAAAAAGATCAAT
Done.