Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014629.1 Corchorus olitorius cultivar O-4 contig14662, 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: 6162
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36


Found at i:2029 original size:13 final size:13

Alignment explanation


    Indices: 2011--2041  Score: 53
    Period size: 13  Copynumber: 2.4  Consensus size: 13

       2001 AAACGGAAAA

                         
       2011 TTCAGAAGTGCTT
          1 TTCAGAAGTGCTT

                   *     
       2024 TTCAGAATTGCTT
          1 TTCAGAAGTGCTT

                 
       2037 TTCAG
          1 TTCAG

       2042 TTGTTTTTGA


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  13   17  1.00

ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42


Consensus pattern (13 bp):   
TTCAGAAGTGCTT

Found at i:4248 original size:32 final size:32

Alignment explanation


    Indices: 4212--4277  Score: 132
    Period size: 32  Copynumber: 2.1  Consensus size: 32

       4202 GATTATTGAT

                                            
       4212 TAATTATTAAATACTAGACATATAATTGAATA
          1 TAATTATTAAATACTAGACATATAATTGAATA

                                            
       4244 TAATTATTAAATACTAGACATATAATTGAATA
          1 TAATTATTAAATACTAGACATATAATTGAATA

              
       4276 TA
          1 TA

       4278 CTATTATATA


Statistics
Matches: 34,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  32   34  1.00

ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38


Consensus pattern (32 bp):   
TAATTATTAAATACTAGACATATAATTGAATA

Found at i:6093 original size:3 final size:3

Alignment explanation


    Indices: 6085--6153  Score: 138
    Period size: 3  Copynumber: 23.0  Consensus size: 3

       6075 ATTATTGAGA

                                                                           
       6085 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
          1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT

                                       
       6133 CTT CTT CTT CTT CTT CTT CTT
          1 CTT CTT CTT CTT CTT CTT CTT

       6154 TTTTTTGTT


Statistics
Matches: 66,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   66  1.00

ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67


Consensus pattern (3 bp):   
CTT

Done.