Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01019044.1 Corchorus olitorius cultivar O-4 contig19077, 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: 2772
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.38


Found at i:276 original size:21 final size:21

Alignment explanation


    Indices: 233--276  Score: 54
    Period size: 21  Copynumber: 2.1  Consensus size: 21

        223 CCAATTTAGG

                     *     *     
        233 TTTAGATTTCAATTTCTTGTT
          1 TTTAGATTTAAATTTATTGTT

                                  
        254 TTTAGATTTAAGATTTATT-TT
          1 TTTAGATTTAA-ATTTATTGTT

              
        275 TT
          1 TT

        277 ATGCATCTTA


Statistics
Matches: 20,  Mismatches: 2, Indels: 2
        0.83            0.08        0.08

Matches are distributed among these distances:
  21   14  0.70
  22    6  0.30

ACGTcount: A:0.23, C:0.05, G:0.09, T:0.64


Consensus pattern (21 bp):   
TTTAGATTTAAATTTATTGTT

Found at i:662 original size:12 final size:11

Alignment explanation


    Indices: 633--668  Score: 63
    Period size: 11  Copynumber: 3.3  Consensus size: 11

        623 AGAAAATTGT

                       
        633 TTGTTTTTGGA
          1 TTGTTTTTGGA

                       
        644 TTGTTTTTGGA
          1 TTGTTTTTGGA

                    *  
        655 TTGTTTTTAGA
          1 TTGTTTTTGGA

               
        666 TTG
          1 TTG

        669 ATTAATCCTC


Statistics
Matches: 24,  Mismatches: 1, Indels: 0
        0.96            0.04        0.00

Matches are distributed among these distances:
  11   24  1.00

ACGTcount: A:0.11, C:0.00, G:0.25, T:0.64


Consensus pattern (11 bp):   
TTGTTTTTGGA
Done.