Sentence examples for alignment to the model from inspiring English sources

Windows around high-scoring ungapped alignments are subjected to a full-gapped Viterbi alignment to the model.

The joint probability of observed sequence fragments and their local alignment to the model will then be an appropriate marginal sum over global alignments.

Alternatively, the entire observed sequence x1 … x L can be forced into an optimal local alignment to the model by choosing v, X that maximize α X v (1, L).

We observed a bias toward longer sequences in the contigs with BLASTX alignments to the model proteomes.

Alignment to the covariance model (CM) clearly shows that Y1 and Y3 fits the model consistently in all organisms, while the Y4 and Y5 RNAs are all somewhat divergent in the pig/cow/dolphin part of the tree.

Furthermore, this value additionally accumulates an error gained in the process of alignment to the reference model, which we are unable to extract from the final result.

Candidate sequences were determined by a combination of low E value (generally less than E = 0.01) and a long alignment to the HMM model.

Preliminary deduction of VerFtsZ protein structure from secondary structure comparisons using Cn3D database at NCBI resulted in reasonable alignment to the structural model of 1FSZ for FtsZ of Methanococcus jannaschii from Protein Data Bank (note that this species is synonymous with Methanocaldococcus jannaschii, the name used in some other databases employed for this study).

We set the reference tree for each alignment to be the model tree that generated the data (known to us because we performed the simulation), with all zero-event branches contracted.

Adequate parameters for phylogeny inference were obtained by submitting the produced alignment to the ProtTest evolutionary model selection software [23].

Simulations were performed by randomly placing the observed number of transcript reads within the model and summing the contributions in cumulative read depth of each alignment to the size-adjusted transcript model.