Simple Tandem Repeats by TRF (GTGTTTGCTTTTGTTT)
 
Item: GTGTTTGCTTTTGTTT
Position: NC_049169.1:69847521-69847569
Genomic Size: 49
View DNA for this feature (GCF_009769625.2/bCygOlo1.pri.v2 Mar. 2021)

Length of repeat unit16
Mean number of copies of repeat2.9
Length of consensus sequence18
Percentage Match81
Percentage Indel6
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5050
Percent of A's in repeat unit0
Percent of C's in repeat unit4
Percent of G's in repeat unit24
Percent of T's in repeat unit71
Entropy1.03
Sequence of repeat unit elementGTGTTTGCTTTTGTTTGT
Data schema/format description and download

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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 31 Mar 2021 Cygnus olor/GCF_009769625.2_bCygOlo1.pri.v2/GCF_009769625.2 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 301,579 items in the track covering 15,186,558 bases, assembly size 1,134,186,642 bases, percent coverage % 1.34.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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