Sentence examples for the alignment covers from inspiring English sources

If the subject is over 40% identical to the query and the alignment covers at least 80% of the subject, then the subject is clustered with the query, and any homology relations involving the subject will be ignored.

This hit retains 61%% sequence identity and the alignment covers 90%% of the length of the query (alignments are shown in Additional file 23: Figure S13).

To estimate the mapping quality of a BWA-SW alignment, we fit an empirical formula: 250· c1· c2·(S1− S2)/ S1, where S1 is the score of the best alignment, S2 the score of the second best alignment, c1 equals 1 if the alignment covers more than four seeds or 0.5 otherwise, and c2 equals to 1 if the best alignment is found by both forward forward and reverse reverse alignments or 0.2 otherwise.

Protein sequences were considered paralogous if their alignment had an E-value less than or equal to 1e-5 and the alignment covered 70% or more of one of the aligned proteins.

Gene duplication events were defined based on the following three criteria: (a) the alignment covered >80%% of the longer gene; (b) the aligned region had an identity >80%%; and (c) only one duplication event was counted for the tightly linked genes [ 38, 60].

We call N the total length of the alignment covered by human and mouse ESEs, i.e., the number of aligned nucleotides labelled as H and M in Figure 8.

the percentage of the alignment covered by the blocks.

A hit was considered significant if the alignment covered at least 50% of both sequences, and contained at least 50% identities [71].

To investigate in more detail the factors affecting the performance of each program, we characterized each alignment using a number of 'global' attributes describing the overall full-length alignment, including the number of sequences to be aligned, their length, an MSA objective function (norMD) [40] and the percentage of the alignment covered by the blocks.

If the alignment covered 50% or greater, it was put into the cluster; otherwise, the alignment was discarded.

The other set was based on a stringent coverage criterion, requiring that the alignment cover 80% of the coding sequence.