Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012299.1 Corchorus olitorius cultivar O-4 contig12332, 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: 3934
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34


Found at i:2816 original size:22 final size:21

Alignment explanation


    Indices: 2791--2833  Score: 59
    Period size: 21  Copynumber: 2.0  Consensus size: 21

       2781 CCAAGTCATT

                     *            
       2791 ACCGCCCATTCACCGTGCCATC
          1 ACCGCCCATGC-CCGTGCCATC

                *                
       2813 ACCGGCCATGCCCGTGCCATC
          1 ACCGCCCATGCCCGTGCCATC

       2834 GCCATTCCAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 1
        0.86            0.09        0.05

Matches are distributed among these distances:
  21   10  0.53
  22    9  0.47

ACGTcount: A:0.16, C:0.49, G:0.19, T:0.16


Consensus pattern (21 bp):   
ACCGCCCATGCCCGTGCCATC

Found at i:3209 original size:15 final size:14

Alignment explanation


    Indices: 3189--3218  Score: 51
    Period size: 15  Copynumber: 2.1  Consensus size: 14

       3179 ATCTCTTTAA

                           
       3189 TTTTCCTTGCATTAT
          1 TTTTCCTTG-ATTAT

                          
       3204 TTTTCCTTGATTAT
          1 TTTTCCTTGATTAT

             
       3218 T
          1 T

       3219 GCTTTAATTG


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  14    6  0.40
  15    9  0.60

ACGTcount: A:0.13, C:0.17, G:0.07, T:0.63


Consensus pattern (14 bp):   
TTTTCCTTGATTAT
Done.