Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01018310.1 Corchorus olitorius cultivar O-4 contig18343, 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: 5684
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34


Found at i:4562 original size:27 final size:27

Alignment explanation


    Indices: 4528--4599  Score: 76
    Period size: 28  Copynumber: 2.6  Consensus size: 27

       4518 CGGCATTTAA

                                        
       4528 GGGCAAAACTGTAATTTAG-TCAACCAG
          1 GGGCAAAACTGTAATTTAGCT-AACCAG

               *                   *     
       4555 GGGTAAAA-TGGTAATTTTAGCTGACCAG
          1 GGGCAAAACT-GTAA-TTTAGCTAACCAG

                     *       
       4583 GGGCAAAACAGTAATTT
          1 GGGCAAAACTGTAATTT

       4600 CGACATCTTA


Statistics
Matches: 37,  Mismatches: 4, Indels: 8
        0.76            0.08        0.16

Matches are distributed among these distances:
  26    1  0.03
  27   14  0.38
  28   21  0.57
  29    1  0.03

ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25


Consensus pattern (27 bp):   
GGGCAAAACTGTAATTTAGCTAACCAG

Found at i:5665 original size:21 final size:21

Alignment explanation


    Indices: 5641--5684  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

       5631 TCCTTTTTCC

                              *   
       5641 TTTCTTATTCTTC-TTTCTTTT
          1 TTTCTT-TTCTTCATTTCATTT

                    *            
       5662 TTTCTTTTTTTCATTTCATTT
          1 TTTCTTTTCTTCATTTCATTT

              
       5683 TT
          1 TT


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  20    5  0.25
  21   15  0.75

ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77


Consensus pattern (21 bp):   
TTTCTTTTCTTCATTTCATTT
Done.