Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01007781.1 Corchorus olitorius cultivar O-4 contig07807, 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, 684

Length: 1141
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35


Found at i:348 original size:24 final size:25

Alignment explanation


    Indices: 303--349  Score: 69
    Period size: 25  Copynumber: 1.9  Consensus size: 25

        293 TATTCAGTGT

                                     
        303 GTTTTTTCTTTGAGAGGAAGAGAGA
          1 GTTTTTTCTTTGAGAGGAAGAGAGA

                   *   *           
        328 GTTTTTTGTTTTAGAGG-AGAGA
          1 GTTTTTTCTTTGAGAGGAAGAGA

        350 ATCAGTCAGT


Statistics
Matches: 20,  Mismatches: 2, Indels: 1
        0.87            0.09        0.04

Matches are distributed among these distances:
  24    5  0.25
  25   15  0.75

ACGTcount: A:0.26, C:0.02, G:0.32, T:0.40


Consensus pattern (25 bp):   
GTTTTTTCTTTGAGAGGAAGAGAGA

Found at i:510 original size:25 final size:25

Alignment explanation


    Indices: 476--530  Score: 110
    Period size: 25  Copynumber: 2.2  Consensus size: 25

        466 TGAGGGTTTC

                                     
        476 TGTGTATTTCTTTAGAGGGCAGCTG
          1 TGTGTATTTCTTTAGAGGGCAGCTG

                                     
        501 TGTGTATTTCTTTAGAGGGCAGCTG
          1 TGTGTATTTCTTTAGAGGGCAGCTG

                 
        526 TGTGT
          1 TGTGT

        531 GTGATTGTTG


Statistics
Matches: 30,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  25   30  1.00

ACGTcount: A:0.15, C:0.11, G:0.33, T:0.42


Consensus pattern (25 bp):   
TGTGTATTTCTTTAGAGGGCAGCTG
Done.