Simple Tandem Repeats by TRF (TTTTTATAGATTTTTC)
Position: NW_019826381.1:764563-764603
Genomic Size: 41
View DNA for this feature (GCF_002906115.1/CorkOak1.0 Jan. 2018)

Length of repeat unit18
Mean number of copies of repeat2.3
Length of consensus sequence18
Percentage Match91
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5064
Percent of A's in repeat unit21
Percent of C's in repeat unit2
Percent of G's in repeat unit9
Percent of T's in repeat unit65
Sequence of repeat unit elementTTTTTATAGATTTTTCAA
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This track displays simple tandem repeats (possibly imperfect repeats) on the 29 Jan 2018 Quercus suber/GCF_002906115.1_CorkOak1.0/GCF_002906115.1 genome assembly, located by Tandem Repeats Finder (TRF) which is specialized for this purpose. These repeats can occur within coding regions of genes and may be quite polymorphic. Repeat expansions are sometimes associated with specific diseases.

There are 491,126 items in the track covering 56,718,649 bases, assembly size 953,298,670 bases, percent coverage % 5.95.


For more information about the TRF program, see Benson (1999).


TRF was written by Gary Benson.


Benson G. Tandem repeats finder: a program to analyze DNA sequences. Nucleic Acids Res. 1999 Jan 15;27(2):573-80. PMID: 9862982; PMC: PMC148217


This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).


Gardiner-Garden M, Frommer M. CpG islands in vertebrate genomes. J Mol Biol. 1987 Jul 20;196(2):261-82. PMID: 3656447