Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023293.1 Corchorus olitorius cultivar O-4 contig23326, 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: 4840
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29


Found at i:670 original size:15 final size:16

Alignment explanation


    Indices: 646--685  Score: 55
    Period size: 15  Copynumber: 2.6  Consensus size: 16

        636 AGAGGTTGAA

                 *          
        646 AGAAAGCAATTAAAC-
          1 AGAAAACAATTAAACT

                        *   
        661 AGAAAACAATTATACT
          1 AGAAAACAATTAAACT

                     
        677 AGAAAACAA
          1 AGAAAACAA

        686 AGCAAAGTAA


Statistics
Matches: 22,  Mismatches: 2, Indels: 1
        0.88            0.08        0.04

Matches are distributed among these distances:
  15   13  0.59
  16    9  0.41

ACGTcount: A:0.62, C:0.12, G:0.10, T:0.15


Consensus pattern (16 bp):   
AGAAAACAATTAAACT

Found at i:1504 original size:9 final size:10

Alignment explanation


    Indices: 1473--1508  Score: 65
    Period size: 10  Copynumber: 3.7  Consensus size: 10

       1463 TAAAGAGAAT

                      
       1473 TATGTGAAGG
          1 TATGTGAAGG

                      
       1483 TATGTGAAGG
          1 TATGTGAAGG

                      
       1493 TATGTG-AGG
          1 TATGTGAAGG

                   
       1502 TATGTGA
          1 TATGTGA

       1509 TTTGTGTTAC


Statistics
Matches: 25,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   9    9  0.36
  10   16  0.64

ACGTcount: A:0.28, C:0.00, G:0.39, T:0.33


Consensus pattern (10 bp):   
TATGTGAAGG
Done.