Sentence examples for minimum sequence overlap from inspiring English sources

By choosing a minimum sequence overlap of 100 positions, we attempted to find a reasonable compromise between sequence overlap and number of species in the analysis.

First MIRA3 [ 76] was used with the assembly settings of minimum sequence overlap of 30 bp and minimum percentage overlap identity of 80%.

The de novo assembly from MIRA results in 33222 contigs, which were passed to CAP3 to get a more robust assembly, with a minimum sequence overlap length of 40 bases and an identity threshold of 90%.

Incremental de novo assembly analysis was performed with a parameter setting requiring a minimum sequence overlap length of 40 nt, a minimum overlap identity of 90% and using 16 CPU cores.

For assembly, minimum sequence overlap of 30nt with a minimum 80% identity were required for collapsing sequences into a contig using the flags "-mol 30" and "-mpi 80," respectively.

Accordingly, we tried to cope with the problem of data scarcity by ensuring a minimum sequence overlap between taxa and a standardized data set density [steps III, IX, XIII, XIV and XV].

Potential redundant sequences were grouped, using the TGI Clustering Tool set with a minimum 40% sequence overlap and over 80% sequence identity.

Repeated elements were then removed using RepeatMasker [ 44] with a Viridiplantae database compiled in RepBase (01/08/2008 version) [ 45] to which we added the Silene latifolia - specific repeated elements identified by Cermak and coworkers [ 32]. EST reads were then clustered and contigs built using TGICL [ 46] with the default parameters (95% of identity and 40 bp minimum for sequence overlap).

Transcript contigs were binned into loci based on a minimum of 200 bp sequence overlap as determined by an all-vs-all comparison using Vmatch [ 67].

The EST sequences were assembled into contigs using CAP3 [ 9] under high stringency parameters of a minimum sequence identity of 98%; minimum overlap length of 40 nt; gap penalty, 6; match value, 2; mismatch penalty (−5).

We used a low BLAST identity filter of 95%, and a required sequence alignment overlap of 60% of minimum sequence length.