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PMID: 2172928 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, P.H.S.

Sequence logos: a new way to display consensus sequences.

Nucleic acids research ·Vol. 18 ·No. 20 ·1990-10-25 ·Pages 6097-100

Schneider TD, Stephens RM

Abstract

A graphical method is presented for displaying the patterns in a set of aligned sequences. The characters representing the sequence are stacked on top of each other for each position in the aligned sequences. The height of each letter is made proportional to its frequency, and the letters are sorted so the most common one is on top. The height of the entire stack is then adjusted to signify the information content of the sequences at that position. From these 'sequence logos', one can determine not only the consensus sequence but also the relative frequency of bases and the information content (measured in bits) at every position in a site or sequence. The logo displays both significant residues and subtle sequence patterns.

MeSH Terms
Amino Acid Sequence Bacteriophage lambda/genetics Base Sequence Binding Sites Chromosome Deletion DNA Transposable Elements DNA-Directed RNA Polymerases/metabolism Escherichia coli/genetics Genes, Viral Genetic Techniques Globins/genetics Humans Molecular Sequence Data T-Phages/enzymology,genetics
Chemicals
DNA Transposable Elements Globins DNA-Directed RNA Polymerases
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Schneider T D
National Cancer Institute, Frederick Cancer Research and Development Center, MD 21701.
Stephens R M
References (11)
11 references, click to expand
  1. The 3'-terminal sequence of Escherichia coli 16S ribosomal RNA: complementarity to nonsense triplets and ribosome binding sites.
    Proc Natl Acad Sci U S A. 1974 Apr;71(4):1342-6 PMID: 4598299
  2. Translational initiation in prokaryotes.
    Annu Rev Microbiol. 1981;35:365-403 PMID: 6170248
  3. A design for computer nucleic-acid-sequence storage, retrieval, and manipulation.
    Nucleic Acids Res. 1982 May 11;10(9):3013-24 PMID: 7099972
  4. Regulatory pattern identification in nucleic acid sequences.
    Nucleic Acids Res. 1983 Apr 11;11(7):2221-31 PMID: 6340068
  5. Delila system tools.
    Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):129-40 PMID: 6694897
  6. Information content of Caenorhabditis elegans splice site sequences varies with intron length.
    Nucleic Acids Res. 1990 Mar 25;18(6):1509-12 PMID: 2326191
  7. Determinants of a protein fold. Unique features of the globin amino acid sequences.
    J Mol Biol. 1987 Jul 5;196(1):199-216 PMID: 3656444
  8. Excess information at bacteriophage T7 genomic promoters detected by a random cloning technique.
    Nucleic Acids Res. 1989 Jan 25;17(2):659-74 PMID: 2915926
  9. Consensus patterns in DNA.
    Methods Enzymol. 1990;183:211-21 PMID: 2179676
  10. Unified approach to alignment and phylogenies.
    Methods Enzymol. 1990;183:626-45 PMID: 2314296
  11. Information content of binding sites on nucleotide sequences.
    J Mol Biol. 1986 Apr 5;188(3):415-31 PMID: 3525846
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
0305-1048
DOI
10.1093/nar/18.20.6097
Published
1990-10-25
Pages
6097-100
Language
English
Region
England
NLM ID
0411011
PMCID
PMC332411
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/18.20.6097 PMC Full Text View journal details
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