Simple Tandem Repeats by TRF (AT)
 
Item: AT
Position: NW_020663262.1:4749557-4749581
Genomic Size: 25
View DNA for this feature (GCF_002938995.1/ASM293899v1 Feb. 2018)

Length of repeat unit2
Mean number of copies of repeat12.5
Length of consensus sequence2
Percentage Match100
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5050
Percent of A's in repeat unit52
Percent of C's in repeat unit0
Percent of G's in repeat unit0
Percent of T's in repeat unit48
Entropy1.00
Sequence of repeat unit elementAT
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 23 Feb 2018 Vanessa tameamea/GCF_002938995.1_ASM293899v1/GCF_002938995.1 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 36,358 items in the track covering 1,999,496 bases, assembly size 357,124,929 bases, percent coverage % 0.56.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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