Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01002530.1 Corchorus olitorius cultivar O-4 contig02530, 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, 637

Length: 1062
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.39


Found at i:370 original size:31 final size:32

Alignment explanation


    Indices: 308--380  Score: 85
    Period size: 31  Copynumber: 2.3  Consensus size: 32

        298 TAGGTAATTT

                  *      *   *        *     
        308 TCTCGGATCATTCGGGTTTCGACTCATCTGGG
          1 TCTCGGGTCATTCAGGTCTCGACTCAGCTGGG

                *                 *         
        340 T-TCTGGTCATTCAGGTCTCGAGTCAGCTGGG
          1 TCTCGGGTCATTCAGGTCTCGACTCAGCTGGG

                      
        371 TCTCGGGTCA
          1 TCTCGGGTCA

        381 GCAGGGTTCG


Statistics
Matches: 33,  Mismatches: 7, Indels: 2
        0.79            0.17        0.05

Matches are distributed among these distances:
  31   25  0.76
  32    8  0.24

ACGTcount: A:0.12, C:0.25, G:0.30, T:0.33


Consensus pattern (32 bp):   
TCTCGGGTCATTCAGGTCTCGACTCAGCTGGG

Found at i:372 original size:16 final size:16

Alignment explanation


    Indices: 353--387  Score: 52
    Period size: 16  Copynumber: 2.2  Consensus size: 16

        343 TGGTCATTCA

                          * 
        353 GGTCTCGAGTCAGCTG
          1 GGTCTCGAGTCAGCAG

                   *        
        369 GGTCTCGGGTCAGCAG
          1 GGTCTCGAGTCAGCAG

               
        385 GGT
          1 GGT

        388 TCGTGTTTTG


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  16   17  1.00

ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23


Consensus pattern (16 bp):   
GGTCTCGAGTCAGCAG
Done.