Simple Tandem Repeats by TRF (AAAAAAAAAAAAAC)
Position: NC_051386.1:21975954-21976006
Genomic Size: 53
View DNA for this feature (GCF_015228065.1/NSTDA_Pmon_1 Nov. 2020)

Length of repeat unit15
Mean number of copies of repeat3.5
Length of consensus sequence14
Percentage Match80
Percentage Indel14
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5052
Percent of A's in repeat unit84
Percent of C's in repeat unit9
Percent of G's in repeat unit5
Percent of T's in repeat unit0
Sequence of repeat unit elementAAAAAAAAAAAAAC
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This track displays simple tandem repeats (possibly imperfect repeats) on the 05 Nov 2020 Penaeus monodon/GCF_015228065.1_NSTDA_Pmon_1/GCF_015228065.1 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 7,028,944 items in the track covering 524,601,632 bases, assembly size 2,394,347,767 bases, percent coverage % 21.91.


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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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