Simple Tandem Repeats by TRF (CTTGGTCTTGG)
 
Item: CTTGGTCTTGG
Position: FR990066.1:8994999-8995024
Genomic Size: 26
View DNA for this feature (GCA_905404285.1/ilEraDefo1.1 Apr. 2021)

Length of repeat unit11
Mean number of copies of repeat2.4
Length of consensus sequence11
Percentage Match100
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5052
Percent of A's in repeat unit0
Percent of C's in repeat unit19
Percent of G's in repeat unit34
Percent of T's in repeat unit46
Entropy1.50
Sequence of repeat unit elementCTTGGTCTTGG
View table schema

Go to Simple Repeats track controls


Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 15 Apr 2021 Erannis defoliaria/GCA_905404285.1_ilEraDefo1.1/GCA_905404285.1 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 131,342 items in the track covering 14,219,358 bases, assembly size 522,369,616 bases, percent coverage % 2.72.

Methods

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

Credits

TRF was written by Gary Benson.

References

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

Credits

This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).

References

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