Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01023608.1 Corchorus olitorius cultivar O-4 contig23641, 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: 3166
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29


Found at i:259 original size:19 final size:19

Alignment explanation


    Indices: 231--272  Score: 66
    Period size: 20  Copynumber: 2.2  Consensus size: 19

        221 CGCAAAAACA

                          *     
        231 AAATTTTTTTTTTATGACGC
          1 AAATTTTTTTTTT-CGACGC

                               
        251 AAATTTTTTTTTTCGACGC
          1 AAATTTTTTTTTTCGACGC

               
        270 AAA
          1 AAA

        273 ACACAAAACA


Statistics
Matches: 21,  Mismatches: 1, Indels: 1
        0.91            0.04        0.04

Matches are distributed among these distances:
  19    8  0.38
  20   13  0.62

ACGTcount: A:0.29, C:0.12, G:0.10, T:0.50


Consensus pattern (19 bp):   
AAATTTTTTTTTTCGACGC

Found at i:676 original size:16 final size:15

Alignment explanation


    Indices: 638--679  Score: 66
    Period size: 15  Copynumber: 2.7  Consensus size: 15

        628 ACAGAGGTTG

                   *       
        638 ACAGAAAGCAATTAA
          1 ACAGAAAACAATTAA

                           
        653 ACAGAAAACAATTAA
          1 ACAGAAAACAATTAA

                        
        668 ACTAGAAAACAA
          1 AC-AGAAAACAA

        680 AACAAAGTAA


Statistics
Matches: 25,  Mismatches: 1, Indels: 1
        0.93            0.04        0.04

Matches are distributed among these distances:
  15   16  0.64
  16    9  0.36

ACGTcount: A:0.64, C:0.14, G:0.10, T:0.12


Consensus pattern (15 bp):   
ACAGAAAACAATTAA
Done.