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The substitution model parameters were re-estimated and the heuristic search repeated.
When long tracts of non-coding sequence were apparent and tRNA genes were not detected using default settings, the cove cutoff score was reduced and the search repeated.
The following data sources were searched in May 2010, September 2011 and the search repeated in December 2012 for updates: PubMed/Medline from 2001 to 2012 and EMBASE from 2001 to 2012.
The first search was executed on December 6th 2012 by a Life Science librarian from a medical library and, as an update of the search, repeated with saved searches on February 25th 2014.
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The CNDP work of [12] utilizes a solution to the maximum-independent set (MIS) problem as a starting point for a local search, repeating the process until a desired termination criteria is reached.
Initial searches were carried out in November 2007, with electronic database searches repeated in March 2010.
Thus, we recommend that future studies on ISs and MITEs may combine de novo and library-based methods, ideally IRs search, Repeats search and profile HMM search.
In the first step, RepeatMasker [ 29] with the CrossMatch algorithm and default settings was used to search repeats without specifying a custom library.
In the general case, the search for repeated triples is following by a sequential search for repeated n-tuples, n = 4, 5, 6.... until the search is exhausted.
The search for repeated pairs therefore ends, and the search for repeated triples begins.
The EBSCOhost platform was used to search PsycInfo and CINAHL databases, and the search was repeated using the PubMed database.
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