title: Single-base sequencing and similarity comparisons.
abstract: A "single-base sequence" is a DNA sequence in which the identities and locations of bases of only one type have been determined. We present experimental procedures for single-base sequencing and describe the effective use of existing software (FASTA) in similarity comparisons of single-base sequences. We determined the theoretical and experimental minimum sequence lengths required for identification of a sequence within a large dataset and optimized the FASTA parameters for use in single-base similarity comparisons. Single-base sequences have been used to identify cDNAs occurring in a database. Single-base sequencing could be used to reduce the redundancy of "shot-gun sequencing."
authors.affiliation: Theoretical Biology and Biophysics, Los Alamos National Laboratory, New Mexico 87545, USA.
authors.forename: G
authors.initials: G
authors.lastname: Xie
authors.forename: R
authors.initials: R
authors.lastname: Lobb
authors.forename: W J
authors.initials: WJ
authors.lastname: Bruno
authors.forename: D C
authors.initials: DC
authors.lastname: Torney
authors.forename: J M
authors.initials: JM
authors.lastname: Gatewood
mesh_terms: D016208:Databases, Factual; D008432:Mathematical Computing; D008957:Models, Genetic