Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002012.1 Corchorus capsularis cultivar CVL-1 contig02015, 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, 713

Length: 1189
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31


Found at i:216 original size:18 final size:18

Alignment explanation


    Indices: 189--225  Score: 65
    Period size: 18  Copynumber: 2.1  Consensus size: 18

        179 TTAAACATTT

                 *            
        189 TCTTATTGATGATGATGA
          1 TCTTACTGATGATGATGA

                              
        207 TCTTACTGATGATGATGA
          1 TCTTACTGATGATGATGA

             
        225 T
          1 T

        226 ATCGATTTTG


Statistics
Matches: 18,  Mismatches: 1, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  18   18  1.00

ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43


Consensus pattern (18 bp):   
TCTTACTGATGATGATGA

Found at i:303 original size:18 final size:18

Alignment explanation


    Indices: 282--344  Score: 90
    Period size: 18  Copynumber: 3.5  Consensus size: 18

        272 TAGAATTTTA

                     *    *   
        282 TGACGATATGGATGCTAG
          1 TGACGATATTGATGATAG

                 *            
        300 TGACGTTATTGATGATAG
          1 TGACGATATTGATGATAG

                 *            
        318 TGACGCTATTGATGATAG
          1 TGACGATATTGATGATAG

                     
        336 TGACGATAT
          1 TGACGATAT

        345 CGATCGTGAC


Statistics
Matches: 40,  Mismatches: 5, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  18   40  1.00

ACGTcount: A:0.29, C:0.10, G:0.29, T:0.33


Consensus pattern (18 bp):   
TGACGATATTGATGATAG
Done.