Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01015827.1 Corchorus olitorius cultivar O-4 contig15860, 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: 11216
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32


Found at i:730 original size:31 final size:31

Alignment explanation


    Indices: 692--750  Score: 91
    Period size: 31  Copynumber: 1.9  Consensus size: 31

        682 ATTAAGTCCC

                                           
        692 TAACGTTGCAAAATCGACTCAAATCAATTCT
          1 TAACGTTGCAAAATCGACTCAAATCAATTCT

                      *     **          
        723 TAACGTTGCATAATCGGTTCAAATCAAT
          1 TAACGTTGCAAAATCGACTCAAATCAAT

        751 CCATGAAGCC


Statistics
Matches: 25,  Mismatches: 3, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  31   25  1.00

ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31


Consensus pattern (31 bp):   
TAACGTTGCAAAATCGACTCAAATCAATTCT

Found at i:5591 original size:3 final size:3

Alignment explanation


    Indices: 5583--5616  Score: 68
    Period size: 3  Copynumber: 11.3  Consensus size: 3

       5573 AAGTCTTTTC

                                                         
       5583 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
          1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C

       5617 CTTGTGCTTA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   31  1.00

ACGTcount: A:0.32, C:0.35, G:0.00, T:0.32


Consensus pattern (3 bp):   
CAT

Found at i:6474 original size:34 final size:34

Alignment explanation


    Indices: 6431--6496  Score: 132
    Period size: 34  Copynumber: 1.9  Consensus size: 34

       6421 GGTTTTCCAT

                                              
       6431 GTAAATCTGGTTCCTTTTTATTTTATTTTTTTAC
          1 GTAAATCTGGTTCCTTTTTATTTTATTTTTTTAC

                                            
       6465 GTAAATCTGGTTCCTTTTTATTTTATTTTTTT
          1 GTAAATCTGGTTCCTTTTTATTTTATTTTTTT

       6497 GTTAGATAGA


Statistics
Matches: 32,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  34   32  1.00

ACGTcount: A:0.17, C:0.11, G:0.09, T:0.64


Consensus pattern (34 bp):   
GTAAATCTGGTTCCTTTTTATTTTATTTTTTTAC
Done.