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It incorporates logic to identify L1 trigger primitives in the form of "stubs": high transverse-momentum track candidates which are identified within the low momentum background by selecting correlated hits between two closely separated microstrip sensors.
Mutually best hits between two sequences from different species serve as main orthologs that form an orthologous group.
The best reciprocal hits between two species were assigned as orthologous genes.
To identify best bidirectional hits between two sets of ESTs reciprocal tblastx WU-Blast analyses were performed.
Orthologues were defined as bi-directional best hits between two species with an E-value of ≤0.01.
During InParanoid analysis, an orthology group is initially composed of two so-called seed orthologs that are found by two-way best hits between two proteomes [ 35].
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Pairs of homologous gene sequences were extracted from the best BLAST hit between two pairs of species, A. thaliana vs G. max and S. tuberosum vs S. lycopersicum.
Connections between nodes are only shown if the E-value of the best Blast hit between two sequences is at least as good as the specified E-value cutoff.
Hence, the whole sequence length definition of the family generally overrules also a protein domain family definition, as for example provided by Pfam [ 37], and moreover a single best hit between two sequences.
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