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|Interface||Command line interface|
|Restrictions to use||None|
|Operating system||Unix/Linux, Mac OS|
|License||GNU General Public License version 2.0|
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Publication for Repseek
The Complete Genome Sequence of the Fish Pathogen Tenacibaculum maritimum Provides Insights into Virulence Mechanisms
[…] performed using the web interface MicroScope () which allows graphic visualization enhanced by a synchronized representation of synteny groups. Predictions of repeated sequences were performed using Repseek () and those of genomic islands (GIs) using SIGI-HMM () and Alien hunter (). The dbCAN database was used to identify carbohydrate active enzymes (CAZymes) (). The genomic sequence reported in […]
Sister Dehalobacter Genomes Reveal Specialization in Organohalide Respiration and Recent Strain Differentiation Likely Driven by Chlorinated Substrates
[…] DNA sequences, such as single genes, were performed by MUSCLE (Edgar, ) within Geneious pro. Genome circular maps were created with BRIG (Alikhan et al., ). DNA sequence repeats were identified with Repseek (Achaz et al., ) and inverted repeats were identified with Inverted Repeat Finder (Warburton et al., ). Orthologs between Dehalobacter genomes were identified with reciprocal BLASTP with an e- […]
A Tribute to Disorder in the Genome of the Bloom Forming Freshwater Cyanobacterium Microcystis aeruginosa
[…] as gene pairs satisfying an alignment threshold of at least 50% amino acid sequence identity over at least 50% of the length of the smallest protein.The proportion of repeats was estimated using the Repseek algorithm. This algorithm is a fast two-step method (seed detection followed by their extensions), which allows finding large degenerate repeats within or between large DNA sequences .The synt […]
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