Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01008455.1 Corchorus olitorius cultivar O-4 contig08482, 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, 745

Length: 1243
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33


Found at i:651 original size:21 final size:21

Alignment explanation


    Indices: 627--690  Score: 92
    Period size: 21  Copynumber: 3.0  Consensus size: 21

        617 GCTTGAAGAT

                                 
        627 GCTAGAAGTTCATTGGAGCAA
          1 GCTAGAAGTTCATTGGAGCAA

                                 
        648 GCTAGAAGTTCATTGGAGCAA
          1 GCTAGAAGTTCATTGGAGCAA

             * **   *            
        669 GTTCCAAGCTCATTGGAGCAA
          1 GCTAGAAGTTCATTGGAGCAA

             
        690 G
          1 G

        691 TTCCAAGCTC


Statistics
Matches: 39,  Mismatches: 4, Indels: 0
        0.91            0.09        0.00

Matches are distributed among these distances:
  21   39  1.00

ACGTcount: A:0.31, C:0.17, G:0.28, T:0.23


Consensus pattern (21 bp):   
GCTAGAAGTTCATTGGAGCAA

Found at i:691 original size:21 final size:21

Alignment explanation


    Indices: 653--832  Score: 274
    Period size: 21  Copynumber: 8.6  Consensus size: 21

        643 AGCAAGCTAG

                                  
        653 AAGTTCATTGGAGCAA-GTTCC
          1 AAGTTCATTGGAG-AAGGTTCC

               *                  
        674 AAGCTCATTGGAGCAA-GTTCC
          1 AAGTTCATTGGAG-AAGGTTCC

               *                 
        695 AAGCTCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGAAGGTTCC

                                 
        716 AAGTTCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGAAGGTTCC

                                 
        737 AAGTTCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGAAGGTTCC

               *                 
        758 AAGATCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGAAGGTTCC

                                 
        779 AAGTTCATTGGAGAAGGTTCC
          1 AAGTTCATTGGAGAAGGTTCC

               *               * 
        800 AAGATCATTGGAGAAGGTTTC
          1 AAGTTCATTGGAGAAGGTTCC

               *        
        821 AAGCTCATTGGA
          1 AAGTTCATTGGA

        833 AATGCCTAAG


Statistics
Matches: 151,  Mismatches: 7, Indels: 2
        0.94            0.04        0.01

Matches are distributed among these distances:
  20    2  0.01
  21  149  0.99

ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27


Consensus pattern (21 bp):   
AAGTTCATTGGAGAAGGTTCC

Done.