Sentence examples for using the fasta program from inspiring English sources

tRNA genes were identified with the tRNAscan-SE program [48]; other genes were identified by similarity searches in local databases using the FASTA program [49] and in GenBank using BLAST (http://blast.ncbi.nlm.nih.gov).nih.gov

The proteins of a phage are aligned against every protein in Q using the FASTA program.

Other genes were identified by similar searches in the local databases using the FASTA program (Pearson 1994).

Orthologs were identified using the FASTA program and extracting reciprocal best hits with e-value ≤ 10-30, similarity ≥ 60% and query sequence coverage ≥ 60%.

To identify intron gains that occurred via transposon insertion, all gained intronic sequences were compared to the canonical transposon sequences from Flybase [ 45] using the FASTA program [ 56].

To ascertain orthologous genes, an all-against-all comparison among coding sequences of all 11 species was performed using the FASTA program [ 56].

The obtained sequences were then compared to the two insertion junction sequences (500 bp flanking the junction that was determined by aligning with other duplicon copies) of the Xiao locus in the human genome using the FASTA sequence alignment program [ 23] for TSD identification.

These preliminary sequence identifications were supplemented by focused searches of the assembly using the FastA collection of programs and individual sequences of interest as queries [73].

MiRNA target genes were identified using the FASTA engine of Tapir v1.0 program, with a stringent maximum score of three and minimum free energy ≥ 0.7 [ 84] excluding ESTs annotated as unknown proteins.

Local alignment of protein sequences was done using the FASTA suite (http://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml).shtml

The percentages of similarity were determined using the FASTA network service (European Bioinformatics Institute Fasta Service; available from http://www.ebi.ac.uk/fasta).ac.uk/fasta