Simple Tandem Repeats by TRF (ATATT)
 
Item: ATATT
Position: OU342673.1:14452880-14453049
Genomic Size: 170
View DNA for this feature (GCA_910589285.1/ilMytFerr1.1 Jul. 2021)

Length of repeat unit5
Mean number of copies of repeat33.8
Length of consensus sequence5
Percentage Match99
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=50331
Percent of A's in repeat unit40
Percent of C's in repeat unit0
Percent of G's in repeat unit0
Percent of T's in repeat unit59
Entropy0.97
Sequence of repeat unit elementATATT
Data schema/format description and download

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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 07 Jul 2021 Mythimna ferrago/GCA_910589285.1_ilMytFerr1.1/GCA_910589285.1 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 200,504 items in the track covering 25,994,303 bases, assembly size 861,042,006 bases, percent coverage % 3.02.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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