Simple Tandem Repeats by TRF (GACGGACAGACG)
 
Item: GACGGACAGACG
Position: OU342641.1:10364775-10364801
Genomic Size: 27
View DNA for this feature (GCA_910589605.1/moth C.culmella)

Length of repeat unit12
Mean number of copies of repeat2.2
Length of consensus sequence12
Percentage Match100
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5054
Percent of A's in repeat unit33
Percent of C's in repeat unit25
Percent of G's in repeat unit40
Percent of T's in repeat unit0
Entropy1.56
Sequence of repeat unit elementGACGGACAGACG
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 07 Jul 2021 Chrysoteuchia culmella/GCA_910589605.1_ilChrCulm1.1/GCA_910589605.1 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 122,406 items in the track covering 19,229,035 bases, assembly size 645,226,651 bases, percent coverage % 2.98.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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