MLSTcheck specifications


Unique identifier OMICS_24967
Name MLSTcheck
Software type Application/Script
Interface Command line interface
Restrictions to use None
Output data Some information about the sequence type of the samples.
Operating system Unix/Linux
Programming languages Perl, Shell (Bash)
Computer skills Advanced
Version 2.1.1630910
Stability Stable
Maintained Yes




No version available


  • person_outline CRAWL2 Team

Publication for MLSTcheck

MLSTcheck citations


Pherotype Polymorphism in Streptococcus pneumoniae Has No Obvious Effects on Population Structure and Recombination

Genome Biol Evol
PMCID: 5629823
PMID: 28992304
DOI: 10.1093/gbe/evx188
call_split See protocol

[…] Maela strain 6983_6#45 from all pherotype analyses because the genomes of both strains carry two complete comC alleles encoding for both Csp-1 and Csp-2. We determined sequence types of genomes using MLSTcheck (, online; ). […]


Comparison of classical multi locus sequence typing software for next generation sequencing data

Microb Genom
PMCID: 5610716
PMID: 29026660
DOI: 10.1099/mgen.0.000124

[…] fidence below 10× due to its inherently conservative nature. The running time given for mlst and MLSTcheck includes the de novo assembly time with SPAdes, which accounts for most of the running time. MLSTcheck takes on average four times longer (25 s per sample) to return a result than mlst (5.9 s per sample), with the final results between the two being identical. […]

MLSTcheck institution(s)
Pathogen Informatics, Wellcome Trust Sanger Institute, Hinxton, UK

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