Simple Tandem Repeats by TRF (ATATATTATATATACT)
 
Item: ATATATTATATATACT
Position: PVJD01000001.1:548613-548656
Genomic Size: 44
View DNA for this feature (GCA_004026545.1/MorMeg_v1_BIUU Jan. 2019)

Length of repeat unit19
Mean number of copies of repeat2.3
Length of consensus sequence18
Percentage Match81
Percentage Indel11
Alignment Score = 2*match-7*mismatch-7*indel; minscore=5052
Percent of A's in repeat unit43
Percent of C's in repeat unit2
Percent of G's in repeat unit0
Percent of T's in repeat unit54
Entropy1.12
Sequence of repeat unit elementATATATTATATATACTAT
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Description

This track displays simple tandem repeats (possibly imperfect repeats) on the 16 Jan 2019 Mormoops blainvillei/GCA_004026545.1_MorMeg_v1_BIUU/GCA_004026545.1 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 332,606 items in the track covering 14,842,025 bases, assembly size 2,111,750,309 bases, percent coverage % 0.70.

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This track was generated using a modification of a program developed by G. Miklem and L. Hillier (unpublished).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