Simple Tandem Repeats by TRF (TAAGATTTAGAAGCTA)
 
Item: TAAGATTTAGAAGCTA
Position: OU342673.1:14458532-14459012
Genomic Size: 481
View DNA for this feature (GCA_910589285.1/ilMytFerr1.1 Jul. 2021)

Length of repeat unit82
Mean number of copies of repeat5.9
Length of consensus sequence82
Percentage Match93
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=50770
Percent of A's in repeat unit46
Percent of C's in repeat unit7
Percent of G's in repeat unit25
Percent of T's in repeat unit21
Entropy1.76
Sequence of repeat unit elementTAAGATTTAGAAGCTAGAAAAGAGCGAGCTAGATTTAGAAATAAGATTTAAGAGCTAGAAAAGAGCGAGCTAGATTAAGAAA
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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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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