Simple Tandem Repeats by TRF (CTAACCTTATTGTTAC)
 
Item: CTAACCTTATTGTTAC
Position: LR991019.1:12509529-12510176
Genomic Size: 648
View DNA for this feature (GCA_905163495.1/ilCosTrap1.1 Jan. 2021)

Length of repeat unit48
Mean number of copies of repeat13.2
Length of consensus sequence48
Percentage Match80
Percentage Indel6
Alignment Score = 2*match-7*mismatch-7*indel; minscore=50513
Percent of A's in repeat unit18
Percent of C's in repeat unit31
Percent of G's in repeat unit8
Percent of T's in repeat unit41
Entropy1.81
Sequence of repeat unit elementCTAACCTTATTGTTACACTGACGTTTCCTCCTCGTCCTACTTTTGATC
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 28 Jan 2021 Cosmia trapezina/GCA_905163495.1_ilCosTrap1.1/GCA_905163495.1 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 274,185 items in the track covering 43,474,293 bases, assembly size 825,187,538 bases, percent coverage % 5.27.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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