Simple Repeats Track Settings
 
Simple Tandem Repeats by TRF   (All Variation and Repeats tracks)

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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 24 Sep 2014 Nilaparvata lugens/GCF_000757685.1_NilLug1.0/GCF_000757685.1 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 538,508 items in the track covering 73,041,730 bases, assembly size 1,140,803,929 bases, percent coverage % 6.40.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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