Simple Tandem Repeats by TRF (TG)
 
Item: TG
Position: NW_020653854.1:8773767-8773874
Genomic Size: 108
View DNA for this feature (GCF_003589595.1/ASM358959v1 Sep. 2018)

Length of repeat unit2
Mean number of copies of repeat53.5
Length of consensus sequence2
Percentage Match94
Percentage Indel1
Alignment Score = 2*match-7*mismatch-7*indel; minscore=50126
Percent of A's in repeat unit0
Percent of C's in repeat unit0
Percent of G's in repeat unit44
Percent of T's in repeat unit46
Entropy1.03
Sequence of repeat unit elementTG
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 21 Sep 2018 Hyposmocoma kahamanoa/GCF_003589595.1_ASM358959v1/GCF_003589595.1 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 106,791 items in the track covering 6,266,395 bases, assembly size 731,440,758 bases, percent coverage % 0.86.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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