Simple Tandem Repeats by TRF (AGTTGAAACTTTA)
 
Item: AGTTGAAACTTTA
Position: NC_057421.1:13706623-13706664
Genomic Size: 42
View DNA for this feature (GCF_019457755.1/wasp V.canescens)

Length of repeat unit13
Mean number of copies of repeat3.2
Length of consensus sequence13
Percentage Match86
Percentage Indel13
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5059
Percent of A's in repeat unit35
Percent of C's in repeat unit9
Percent of G's in repeat unit16
Percent of T's in repeat unit38
Entropy1.81
Sequence of repeat unit elementAGTTGAAACTTTA
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 09 Aug 2021 Venturia canescens/GCF_019457755.1_ASM1945775v1/GCF_019457755.1 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 72,096 items in the track covering 28,142,956 bases, assembly size 290,760,430 bases, percent coverage % 9.68.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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