Simple Tandem Repeats by TRF (ATTCAATAGAATACAT)
Position: NW_021604565v1:10831560-10831595
Genomic Size: 36
View DNA for this feature (GCF_004785775.1/NIH_TR_1.0 Apr. 2019)

Length of repeat unit18
Mean number of copies of repeat2.0
Length of consensus sequence18
Percentage Match88
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5054
Percent of A's in repeat unit38
Percent of C's in repeat unit13
Percent of G's in repeat unit19
Percent of T's in repeat unit27
Sequence of repeat unit elementATTCAATAGAATACATGG
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This track displays simple tandem repeats (possibly imperfect repeats) on the 12 Apr 2019 Grammomys surdaster/GCF_004785775.1_NIH_TR_1.0/GCF_004785775.1 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 1,424,025 items in the track covering 77,913,452 bases, assembly size 2,412,664,998 bases, percent coverage % 3.23.


For more information about the TRF program, see Benson (1999).


TRF was written by Gary Benson.


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


This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).


Gardiner-Garden M, Frommer M. CpG islands in vertebrate genomes. J Mol Biol. 1987 Jul 20;196(2):261-82. PMID: 3656447