Sentence examples for using the emboss Water from inspiring English sources

Nucleotide sequence identities were calculated after the pairwise sequence alignment using the EMBOSS Water program (http://www.ebi.ac.uk/Tools/psa/emboss_water/nucleotide.html ).html

ORFs were identified by using the EMBOSS software (version 5.0.0; emboss.sourceforge.net).net

Alignments of the parent genes and CG proteins were generated using the Emboss Needle program (http://emboss.sourceforge.net/) with default options.

These were then aligned using the EMBOSS 'water' local alignment software (Rice et al., 2000) to the D. discoideum, Drosophila melanogaster (AAB58975.1), and Takifugu rubripes (AAD15839.1) NF1 orthologues and the Saccharomyces cerevisiae Ira1p protein (NP_009698.1).

GC content was calculated using the EMBOSS geecee program.

(G + C) content was calculated using the eMBOSS geecee program http://inn-temp.weizmann.ac.il/cgi-bin/emboss/geecee[ 63].

Sequences were translated to amino acids using the Emboss Transeq web application [ 87].

Sequence analysis was performed using the Emboss software suite [ 37], Clustal W [ 38] and 3DCoffee [ 39].

Sequence manipulation was carried out using the EMBOSS suite of programmes [ 54].

Introns were assigned by aligning the unigenes with the melon genomic sequence using the Emboss: est2genome [ 105].

Primer pairs were matched against bovine sequence from GenBank, NT and BTGI databases using the EMBOSS [ 26] primersearch tool.