Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01001837.1 Corchorus olitorius cultivar O-4 contig01837, 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: 5851
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34


Found at i:199 original size:2 final size:2

Alignment explanation


    Indices: 192--222  Score: 53
    Period size: 2  Copynumber: 15.5  Consensus size: 2

        182 AATAATAACT

                               *                          
        192 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA T
          1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T

        223 TTTGGGGGGC


Statistics
Matches: 27,  Mismatches: 2, Indels: 0
        0.93            0.07        0.00

Matches are distributed among these distances:
   2   27  1.00

ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52


Consensus pattern (2 bp):   
TA

Found at i:3904 original size:24 final size:24

Alignment explanation


    Indices: 3860--3905  Score: 58
    Period size: 24  Copynumber: 1.9  Consensus size: 24

       3850 AGAAGAAGAT

                          * *       
       3860 AAGAAAAAGAAAAATAGAAAAAAA
          1 AAGAAAAAGAAAAAGACAAAAAAA

                                   
       3884 AAGAAAAA-ACAAAAGACAAAAA
          1 AAGAAAAAGA-AAAAGACAAAAA

       3906 GAAATATAAA


Statistics
Matches: 19,  Mismatches: 2, Indels: 2
        0.83            0.09        0.09

Matches are distributed among these distances:
  23    1  0.05
  24   18  0.95

ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02


Consensus pattern (24 bp):   
AAGAAAAAGAAAAAGACAAAAAAA
Done.