Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020189.1 Corchorus olitorius cultivar O-4 contig20222, 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: 10524
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32


Found at i:4660 original size:46 final size:46

Alignment explanation


    Indices: 4590--4682  Score: 177
    Period size: 46  Copynumber: 2.0  Consensus size: 46

       4580 GTCACAGGCG

                                                          
       4590 AGAAGACAAACATTAATTCAGTCTACATTAGCAAGTATGCCAAACT
          1 AGAAGACAAACATTAATTCAGTCTACATTAGCAAGTATGCCAAACT

                               *                          
       4636 AGAAGACAAACATTAATTCGGTCTACATTAGCAAGTATGCCAAACT
          1 AGAAGACAAACATTAATTCAGTCTACATTAGCAAGTATGCCAAACT

             
       4682 A
          1 A

       4683 TCGGTTTGCG


Statistics
Matches: 46,  Mismatches: 1, Indels: 0
        0.98            0.02        0.00

Matches are distributed among these distances:
  46   46  1.00

ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24


Consensus pattern (46 bp):   
AGAAGACAAACATTAATTCAGTCTACATTAGCAAGTATGCCAAACT

Found at i:6406 original size:2 final size:2

Alignment explanation


    Indices: 6399--6427  Score: 51
    Period size: 2  Copynumber: 15.0  Consensus size: 2

       6389 TAGTCAGCAG

                                                        
       6399 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT

       6428 TTTAATTTTA


Statistics
Matches: 26,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   1    1  0.04
   2   25  0.96

ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52


Consensus pattern (2 bp):   
AT

Done.