Simple Tandem Repeats by TRF (AAAGATACTACTGCAA)
 
Item: AAAGATACTACTGCAA
Position: LR990987.1:11824163-11824642
Genomic Size: 480
View DNA for this feature (GCA_905163435.1/ilMamBras1.1 Jan. 2021)

Length of repeat unit70
Mean number of copies of repeat6.8
Length of consensus sequence70
Percentage Match93
Percentage Indel1
Alignment Score = 2*match-7*mismatch-7*indel; minscore=50800
Percent of A's in repeat unit28
Percent of C's in repeat unit23
Percent of G's in repeat unit17
Percent of T's in repeat unit31
Entropy1.97
Sequence of repeat unit elementAAAGATACTACTGCAATAAAAGTATCCCTTGTCGCTATTCAGGCCATGTTCTACCTGTGTGCCAAGTTTC
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 28 Jan 2021 Mamestra brassicae/GCA_905163435.1_ilMamBras1.1/GCA_905163435.1 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 86,624 items in the track covering 13,640,306 bases, assembly size 576,184,143 bases, percent coverage % 2.37.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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