We term these sequences pseudo-CNEs, as they are sequences that have high alignment scores, albeit below our conservation threshold, but lack orthology.
Results: Compared with other aligners, Slider has higher alignment accuracy and efficiency.
Troop members of faster teams had higher alignment between their activity levels (represented by bigger circles) than those of slower teams (represented by smaller circles).
We retained only uniquely aligned reads that overlapped by at least 4 nt to each side of the exon-exon junctions and that either could not be aligned when we originally mapped them against the human genome or that had higher alignment scores when mapped to the junctions dataset than against the genome.
Evolutionary conservation: miRanda applies predefined thresholds to select miRNA-target pairs having high alignment score and low minimum free energy of the duplex structure.
Due to these factors, a significant number of reads are multireads: reads that have high-scoring alignments to multiple positions in a reference genome or transcript set (Mortazavi et al., 2008).
This program identifies gene conversion events by detecting putative sequence fragments that appear to have been transferred from one paralog into another (i.e., fragments in a multisequence alignment that have higher sequence similarity to a homologous paralog fragment than would be expected based on the mean similarity levels across the entire gene).
Faces extracted from poor-quality videos can have higher false detection rate and larger alignment errors, which may have great influence on the performance [35].
The other assemblies had longer and fewer contigs, which had higher average alignment length, with the meta-assembly showing the best performance (i.e. fewest number of contigs with highest average aligned contig length (Table 2).
Under a molecular clock or near-molecular clock assumption, we can expect pairs of genes having started diverging later to have accumulated fewer changes, and therefore to have generally higher alignment score, which motivates the use of BBH (fig. 1 a).
