MAK pipeline

MAK specifications

Information


Unique identifier OMICS_15040
Name MAK
Alternative name MITE analysis kit
Software type Toolkit/Suite
Interface Command line interface
Restrictions to use None
Input data Some genomic sequences.
Input format FASTA
Output data The sequences with defined number of flanking sequences at both ends, the long elements within the defined range, the positions of the long elements, the distance and positions of MITEs to closest genes, product and putative function.
Output format FASTA
Operating system Unix/Linux, Windows
Programming languages Perl
Computer skills Advanced
Stability Stable
Requirements BioPerl
Maintained Yes

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Publication for MITE analysis kit

MAK IN pipeline

2015
PMCID: 4495683
PMID: 26067596
DOI: 10.1186/s12915-015-0145-1

[…] salinus genome using either of two methods — tblastn searches against the p. salinus genome using transposase queries representing known dna transposon superfamilies, or the ‘anchor’ function of the mite analysis kit, which scans the genome for longer copies with putative coding sequences [34]. however, blastn searches using the mite consensus sequence against the ncbi databases did retrieve one […]

MAK institution(s)
Institute of Developmental and Molecular Biology and Department of Biology, Texas A&M University,College Station, TX, USA
MAK funding source(s)
Supported in part by NSF grant MCB-0110477.

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