Simple Tandem Repeats by TRF (AAATTAAACAAGCCCA)
Position: NC_039364.1:90136059-90136160
Genomic Size: 102
View DNA for this feature (GCF_003573695.1/ASM357369v1 Sep. 2018)

Length of repeat unit21
Mean number of copies of repeat5.1
Length of consensus sequence19
Percentage Match72
Percentage Indel20
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5075
Percent of A's in repeat unit59
Percent of C's in repeat unit22
Percent of G's in repeat unit4
Percent of T's in repeat unit12
Sequence of repeat unit elementAAATTAAACAAGCCCACAA
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This track displays simple tandem repeats (possibly imperfect repeats) on the 18 Sep 2018 Papaver somniferum/GCF_003573695.1_ASM357369v1/GCF_003573695.1 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 1,050,181 items in the track covering 184,603,198 bases, assembly size 2,715,530,335 bases, percent coverage % 6.80.


For more information about the TRF program, see Benson (1999).


TRF was written by Gary Benson.


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


This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).


Gardiner-Garden M, Frommer M. CpG islands in vertebrate genomes. J Mol Biol. 1987 Jul 20;196(2):261-82. PMID: 3656447