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 27 Jan 2021 Craniophora ligustri/GCA_905163465.1_ilCraLigu1.1/GCA_905163465.1 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 62,271 items in the track covering 7,347,559 bases, assembly size 437,993,611 bases, percent coverage % 1.68.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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