Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01021101.1 Corchorus olitorius cultivar O-4 contig21134, 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: 246710
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


File 2 of 2

Found at i:244644 original size:6 final size:6

Alignment explanation


    Indices: 244626--244657  Score: 55
    Period size: 6  Copynumber: 5.3  Consensus size: 6

     244616 GAGGCAAATT

                     *                           
     244626 TGGGAA TGAGAA TGGGAA TGGGAA TGGGAA TG
          1 TGGGAA TGGGAA TGGGAA TGGGAA TGGGAA TG

     244658 CCGGTGGATA


Statistics
Matches: 24,  Mismatches: 2, Indels: 0
        0.92            0.08        0.00

Matches are distributed among these distances:
   6   24  1.00

ACGTcount: A:0.34, C:0.00, G:0.47, T:0.19


Consensus pattern (6 bp):   
TGGGAA

Found at i:246187 original size:31 final size:31

Alignment explanation


    Indices: 246149--246311  Score: 218
    Period size: 31  Copynumber: 5.3  Consensus size: 31

     246139 GCACAAGGCA

                                    **     
     246149 TGCCACGTGTCACTTTTTGGTACACATGGCG
          1 TGCCACGTGTCACTTTTTGGTACATGTGGCG

              *                            
     246180 TGACACGTGTCACTTTTTGGTACATGTGGCG
          1 TGCCACGTGTCACTTTTTGGTACATGTGGCG

                 *     *       *          *
     246211 TGCCATGTGTCTCTTTTTGATACATGTGGCA
          1 TGCCACGTGTCACTTTTTGGTACATGTGGCG

                                           
     246242 TGCCACGTGTCACTTTTTGGTACATGTGGCG
          1 TGCCACGTGTCACTTTTTGGTACATGTGGCG

                  *    *       *    *     *
     246273 TGCCACATGTCGCTTTTTGATACACGTGGCA
          1 TGCCACGTGTCACTTTTTGGTACATGTGGCG

                    
     246304 TGCCACGT
          1 TGCCACGT

     246312 TGGACACTGT


Statistics
Matches: 114,  Mismatches: 18, Indels: 0
        0.86            0.14        0.00

Matches are distributed among these distances:
  31  114  1.00

ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35


Consensus pattern (31 bp):   
TGCCACGTGTCACTTTTTGGTACATGTGGCG

Found at i:246215 original size:62 final size:62

Alignment explanation


    Indices: 246149--246311  Score: 245
    Period size: 62  Copynumber: 2.6  Consensus size: 62

     246139 GCACAAGGCA

                               *     *    *  *                            
     246149 TGCCACGTGTCACTTTTTGGTACACATGGCGTGACACGTGTCACTTTTTGGTACATGTGGCG
          1 TGCCACGTGTCACTTTTTGATACACGTGGCATGCCACGTGTCACTTTTTGGTACATGTGGCG

                 *     *            *                                     
     246211 TGCCATGTGTCTCTTTTTGATACATGTGGCATGCCACGTGTCACTTTTTGGTACATGTGGCG
          1 TGCCACGTGTCACTTTTTGATACACGTGGCATGCCACGTGTCACTTTTTGGTACATGTGGCG

                  *    *                           
     246273 TGCCACATGTCGCTTTTTGATACACGTGGCATGCCACGT
          1 TGCCACGTGTCACTTTTTGATACACGTGGCATGCCACGT

     246312 TGGACACTGT


Statistics
Matches: 90,  Mismatches: 11, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  62   90  1.00

ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35


Consensus pattern (62 bp):   
TGCCACGTGTCACTTTTTGATACACGTGGCATGCCACGTGTCACTTTTTGGTACATGTGGCG


Done.