Clustal Omega pipeline

Clustal Omega specifications

Information


Unique identifier OMICS_00972
Name Clustal Omega
Alternative name ClustalOmega
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Information


Unique identifier OMICS_00972
Name Clustal Omega
Alternative name ClustalOmega
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publications for Clustal Omega

library_books

Clustal omega.

2014 Curr Protoc Bioinformatics
PMID: 25501942

Clustal Omega citations

 (40)
2018
PMCID: 5935672

[…] in the genomes of c. botulinum group ii strains, genome sequences were re-annotated using prokka version 1.1243. roary version 3.5.744 was used for comparative genomics. alignments were made with clustal omega45 and mega version 6.046 and used for generation of phylogenetic trees using the neighbour joining option. figtree47 was used for annotation of phylogenetic trees. conserved domains […]

2018
PMCID: 5909903

[…] with cd-hit [35] and clustered using clans [36]. the clans cluster map was manually analyzed and various cut-off values and four clusters were defined. sequences from each cluster were aligned with clustal omega [37] and filtered with hhfilter to obtain representative sequences. the representative sequences from of all clusters were collected together and aligned with promals [38]. […]

2018
PMCID: 5940169

[…] latter case, we used the fgenesh+ program of the softberry suite (http://www.softberry.com/) to extract the gene sequence and predict the protein sequence., sequence alignments were performed using clustal omega v1.2.1 (sievers and higgins 2014) with default parameters and were individually manually curated for each pgcf (blouin et al. 2009). each alignment was then analyzed using the software […]

2018
PMCID: 5816814

[…] were used for phylogenetic analysis. the dna sequences of these two genes from all bacteriophages determined in this study and of t5 reference genomes (supplementary table 1) were aligned using clustal omega (sievers et al., 2011). the phylogenetic tree was visualized using mega5.2 (hall, 2013). for whole-bacteriophage sequence phylogeny, the program victor (meier-kolthoff and goeker, 2017) […]

2018
PMCID: 5777986

[…] escherichia coli using blastp49 with cut-off e-value set to 1e-3. after removing incomplete entries, 3120 sequences were obtained. among them, the 111 enterobacterial homologues were aligned with clustal omega50 and the consensus sequence logo was plotted using weblogo351. the degree of sequence similarity of tat proteins between e. coli (tata, tate, tatb) and c. glutamicum (tata, tate, tatb) […]

Clustal Omega institution(s)
School of Medicine and Medical Science, Conway Institute, University College Dublin, Ireland

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