Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006179.1 Corchorus olitorius cultivar O-4 contig06204, 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, 601

Length: 1003
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42


Found at i:664 original size:15 final size:15

Alignment explanation


    Indices: 622--664  Score: 52
    Period size: 16  Copynumber: 2.8  Consensus size: 15

        612 AATTTTCTTG

                          *
        622 GGTCATTCGGGTTCC
          1 GGTCATTCGGGTTCA

                             
        637 GGCTCA-TCTGGGTTCA
          1 GG-TCATTC-GGGTTCA

                        
        653 GGTCATTCGGGT
          1 GGTCATTCGGGT

        665 CTCGGGTTTT


Statistics
Matches: 24,  Mismatches: 1, Indels: 6
        0.77            0.03        0.19

Matches are distributed among these distances:
  15   11  0.46
  16   13  0.54

ACGTcount: A:0.09, C:0.23, G:0.35, T:0.33


Consensus pattern (15 bp):   
GGTCATTCGGGTTCA

Found at i:678 original size:31 final size:31

Alignment explanation


    Indices: 643--705  Score: 92
    Period size: 31  Copynumber: 2.0  Consensus size: 31

        633 TTCCGGCTCA

                             *              
        643 TCTGGGTTCA-GGTCATTCGGGTCTCGGGTTT
          1 TCTGGGTTCAGGGTCATACGGGT-TCGGGTTT

                    *                      
        674 TCTGGGTTTAGGGTCATACGGGTTCGGGTTT
          1 TCTGGGTTCAGGGTCATACGGGTTCGGGTTT

             
        705 T
          1 T

        706 GACCTCAGGT


Statistics
Matches: 29,  Mismatches: 2, Indels: 2
        0.88            0.06        0.06

Matches are distributed among these distances:
  31   18  0.62
  32   11  0.38

ACGTcount: A:0.08, C:0.16, G:0.37, T:0.40


Consensus pattern (31 bp):   
TCTGGGTTCAGGGTCATACGGGTTCGGGTTT

Done.