Simple Tandem Repeats by TRF (TCTTTCCCT)
 
Item: TCTTTCCCT
Position: NW_023271198.1:2373480-2373505
Genomic Size: 26
View DNA for this feature (GCF_005239225.1/ASM523922v1 May 2019)

Length of repeat unit9
Mean number of copies of repeat2.9
Length of consensus sequence9
Percentage Match100
Percentage Indel0
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5052
Percent of A's in repeat unit0
Percent of C's in repeat unit46
Percent of G's in repeat unit0
Percent of T's in repeat unit53
Entropy1.00
Sequence of repeat unit elementTCTTTCCCT
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 08 May 2019 Populus alba/GCF_005239225.1_ASM523922v1/GCF_005239225.1 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 175,288 items in the track covering 19,871,079 bases, assembly size 416,985,780 bases, percent coverage % 4.77.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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