Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01024462.1 Corchorus olitorius cultivar O-4 contig24495, 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: 14876
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34


Found at i:4339 original size:36 final size:36

Alignment explanation


    Indices: 4292--4364  Score: 128
    Period size: 36  Copynumber: 2.0  Consensus size: 36

       4282 AATGCACTTG

                                *               
       4292 GGTTAAAGTTCATTTTAAATCTTAATTTTTAGTATT
          1 GGTTAAAGTTCATTTTAAATATTAATTTTTAGTATT

                                           *    
       4328 GGTTAAAGTTCATTTTAAATATTAATTTTTATTATT
          1 GGTTAAAGTTCATTTTAAATATTAATTTTTAGTATT

             
       4364 G
          1 G

       4365 AAAAAATCAA


Statistics
Matches: 35,  Mismatches: 2, Indels: 0
        0.95            0.05        0.00

Matches are distributed among these distances:
  36   35  1.00

ACGTcount: A:0.32, C:0.04, G:0.11, T:0.53


Consensus pattern (36 bp):   
GGTTAAAGTTCATTTTAAATATTAATTTTTAGTATT

Found at i:13217 original size:22 final size:22

Alignment explanation


    Indices: 13189--13237  Score: 89
    Period size: 22  Copynumber: 2.2  Consensus size: 22

      13179 TTTCAGAACC

                                  
      13189 CGAAGCGACGTGCCTCGAAACT
          1 CGAAGCGACGTGCCTCGAAACT

                                * 
      13211 CGAAGCGACGTGCCTCGAAATT
          1 CGAAGCGACGTGCCTCGAAACT

                 
      13233 CGAAG
          1 CGAAG

      13238 TACAGTTTCC


Statistics
Matches: 26,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  22   26  1.00

ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14


Consensus pattern (22 bp):   
CGAAGCGACGTGCCTCGAAACT
Done.