Simple Tandem Repeats by TRF (ATATTTTACGTGTACG)
 
Item: ATATTTTACGTGTACG
Position: CM032397.1:6153092-6153141
Genomic Size: 50
View DNA for this feature (GCA_019049475.1/ASM1904947v1 Jun. 2021)

Length of repeat unit21
Mean number of copies of repeat2.4
Length of consensus sequence21
Percentage Match90
Percentage Indel3
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5075
Percent of A's in repeat unit26
Percent of C's in repeat unit14
Percent of G's in repeat unit12
Percent of T's in repeat unit48
Entropy1.78
Sequence of repeat unit elementATATTTTACGTGTACGTAATT
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 29 Jun 2021 Eueides isabella/GCA_019049475.1_ASM1904947v1/GCA_019049475.1 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 131,566 items in the track covering 14,446,074 bases, assembly size 440,123,586 bases, percent coverage % 3.28.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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