Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01006546.1 Corchorus olitorius cultivar O-4 contig06571, 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: 2083
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31


Found at i:675 original size:12 final size:13

Alignment explanation


    Indices: 652--681  Score: 53
    Period size: 12  Copynumber: 2.4  Consensus size: 13

        642 ACTAGTAATT

                         
        652 AAAATCAATCAAG
          1 AAAATCAATCAAG

                         
        665 AAAAT-AATCAAG
          1 AAAATCAATCAAG

                 
        677 AAAAT
          1 AAAAT

        682 TAAAGAAAAC


Statistics
Matches: 17,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  12   12  0.71
  13    5  0.29

ACGTcount: A:0.67, C:0.10, G:0.07, T:0.17


Consensus pattern (13 bp):   
AAAATCAATCAAG

Found at i:734 original size:19 final size:18

Alignment explanation


    Indices: 679--734  Score: 55
    Period size: 19  Copynumber: 3.1  Consensus size: 18

        669 TAATCAAGAA

                               
        679 AATTAAAGAAAACAAT--T
          1 AATT-AAGAAAACAATGAT

                      *        
        696 AA-TAAGAAAGCAATGAAT
          1 AATTAAGAAAACAATG-AT

                               
        714 AATTAAGAAAACAATTGAT
          1 AATTAAGAAAACAA-TGAT

              
        733 AA
          1 AA

        735 AAACCTCCAA


Statistics
Matches: 32,  Mismatches: 2, Indels: 8
        0.76            0.05        0.19

Matches are distributed among these distances:
  15   10  0.31
  16    1  0.03
  17    2  0.06
  18    3  0.09
  19   14  0.44
  20    2  0.06

ACGTcount: A:0.62, C:0.05, G:0.11, T:0.21


Consensus pattern (18 bp):   
AATTAAGAAAACAATGAT
Done.