This amounts to calculate a constraint alignment by LocARNA, which restricts the search space and thus speeds up LocARNA.
A method is proposed for calibrating the radius of a rotating coil sensor by relaxing the metrological constraints on alignment and field errors of the reference quadrupole.
Economic constraints and alignment towards nuclear weapons and other military technology necessitated the reorganisation and rationalisation of the Territorial Army in the 1960s.
‡Only the first 3,333 aa residues of the ORF were used for these analyses because of program constraints on alignment size.
Except for the constraint on alignment, the locations of pair members were chosen at random.
Second, in the initial step of our algorithm, the strongest constraint for alignment was placed upon the first 10 nucleotides, which includes the seed region of the miRNA.
Actually, we also point out that we allow the option of a constraint of alignment length and that we used 49% of the total EST length, empirically determined.
Without any constraints, the same alignment was calculated in 7 min. The multiple alignment of 20 chromatograms using the center-star approximation required computation of 190 pairwise alignments.
The Smith-Waterman algorithm is slow because it imposes no constraints on the alignment; that is, no sequences will be filtered out if the final alignment score is not above a predefined threshold.
Coupling constraints for railway alignment and station locations are formulated and addressed, and station locations are generated while searching the railway alignment.
