Sentence examples for use a global alignment from inspiring English sources

We wrote a simple perl script to use a global alignment algorithm (Needleman and Wunsch 1970) with cost-free ends (BLOSUM 62) to align the nucleotide sequences of each αCNS without a detectable ortholog in Br with the expected orthologous regions within Br; these regions were found as described previously.

They all use a global alignment algorithm in [ 4] to construct an alignment for the entire length of the sequences.

These were then aligned using a global alignment algorithm [30].

The Br and At sequences were aligned using a global alignment algorithm (not a blast family algorithm) with no end gap penalties (Needleman and Wunsch 1970).

Subsequently, these sequences were aligned using a global alignment algorithm to remove sequences for which the best blast hit represented only local homology.

If the best hits were the same for both the gene prediction, we re-aligned the two gene models on the reference using a global alignment based on Needleman Wunsch algorithm implemented in the program stretcher from EMBOSS package [ 67].

PE-SW-remap obtained the best mapping results using a global alignment without seeds.

We pragmatically define a microRNA family as a collection of microRNA precursors for which we can construct a plausible sequence alignment using a global alignment tool such as clustalw, i.e., for which sequence homology is unambiguous.

In the following section, we describe analysis of such sequences using a global alignment algorithm to determine the nature of evolutionary modifications that may have contributed to the lack of detectability of these CNSs.

Once filtered to remove highly homologous sequences (>90% sequence identity), the relative specificity of the initial profiles was tested by scanning all included LmSIDER sequences with both HMM profiles using a global alignment algorithm (Additional file 2).

Orthologues were identified as reciprocal best hits [ 16] (using a global alignment where the gaps on the edges of the largest sequence are ignored) with at least 50% identity in amino acid sequence and less than 20% difference in protein length.