Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01017982.1 Corchorus olitorius cultivar O-4 contig18015, 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: 21357
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34


Found at i:850 original size:11 final size:11

Alignment explanation


    Indices: 834--858  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

        824 AATTGAATAG

                       
        834 TTATAAGGATA
          1 TTATAAGGATA

                       
        845 TTATAAGGATA
          1 TTATAAGGATA

               
        856 TTA
          1 TTA

        859 GATTTAATTA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40


Consensus pattern (11 bp):   
TTATAAGGATA

Found at i:10136 original size:13 final size:13

Alignment explanation


    Indices: 10118--10147  Score: 60
    Period size: 13  Copynumber: 2.3  Consensus size: 13

      10108 GGGTAGTTTG

                         
      10118 GATATTTTAAAAT
          1 GATATTTTAAAAT

                         
      10131 GATATTTTAAAAT
          1 GATATTTTAAAAT

                
      10144 GATA
          1 GATA

      10148 GGTTGTTTTC


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   17  1.00

ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43


Consensus pattern (13 bp):   
GATATTTTAAAAT

Found at i:21257 original size:2 final size:2

Alignment explanation


    Indices: 21252--21351  Score: 186
    Period size: 2  Copynumber: 51.0  Consensus size: 2

      21242 AGGGGGGGGT

                                                                          
      21252 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                                                                          
      21294 AG AG AG AG AG AG AG AG -G AG -G AG AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG

                                      
      21334 AG AG AG AG AG AG AG AG AG
          1 AG AG AG AG AG AG AG AG AG

      21352 GGTTTA


Statistics
Matches: 96,  Mismatches: 0, Indels: 4
        0.96            0.00        0.04

Matches are distributed among these distances:
   1    2  0.02
   2   94  0.98

ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00


Consensus pattern (2 bp):   
AG

Done.