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References from RAREFAN: A webservice to identify REPINs and RAYTs in bacterial genomes. Local targets link to admitted publications; unresolved targets remain external evidence.
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update
10.1093/nar/gky379 · 2018 · External reference
Basic local alignment search tool
10.1016/s0022-2836(05)80360-2 · 1990 · External reference
Unresolved reference
2005 · External reference
Identification and Characterization of Domesticated Bacterial Transposases
10.1093/gbe/evx146 · 2017 · External reference
Discovering Complete Quasispecies in Bacterial Genomes
10.1534/genetics.117.201160 · 2017 · External reference
Within-Genome Evolution of REPINs: a New Family of Miniature Mobile DNA in Bacteria
10.1371/journal.pgen.1002132 · 2011 · External reference
Curiosities of REPINs and RAYTs
10.4161/mge.18610 · 2011 · External reference
Ancient Darwinian replicators nested within eubacterial genomes
10.1002/bies.202200085 · 2023 · External reference
The early phase of a bacterial insertion sequence infection
10.1016/j.tpb.2010.08.003 · 2010 · External reference
BLAST+: architecture and applications
10.1186/1471-2105-10-421 · 2009 · External reference
Transposable elements promote the evolution of genome streamlining
10.1098/rstb.2020.0477 · 2022 · External reference
MUSCLE: multiple sequence alignment with high accuracy and high throughput
10.1093/nar/gkh340 · 2004 · External reference
Phylogenies and the Comparative Method
10.1086/284325 · 1985 · External reference
Unresolved reference
2018 · External reference
New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0
10.1093/sysbio/syq010 · 2010 · External reference
andi: Fast and accurate estimation of evolutionary distances between closely related genomes
10.1093/bioinformatics/btu815 · 2015 · External reference
A novel intercistronic regulatory element of prokaryotic operons
10.1038/298760a0 · 1982 · External reference
Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data
10.1093/bioinformatics/bts199 · 2012 · External reference
Unresolved reference
2021 · External reference
The evolution of insertion sequences within enteric bacteria.
10.1093/genetics/131.1.9 · 1992 · External reference
Identification and characterization of repetitive extragenic palindromes (REP)-associated tyrosine transposases: implications for REP evolution and dynamics in bacterial genomes
10.1186/1471-2164-11-44 · 2010 · External reference
How sequence populations persist inside bacterial genomes
10.1093/genetics/iyab027 · 2021 · External reference
R: A Language and Environment for Statistical Computing
2016 · External reference
Mobile DNA can drive lineage extinction in prokaryotic populations
10.1111/j.1420-9101.2010.02106.x · 2010 · External reference
Easy web applications in R
2013 · External reference
Artemis: sequence visualization and annotation
10.1093/bioinformatics/16.10.944 · 2000 · External reference
Distribution and Abundance of Insertion Sequences Among Natural Isolates of Escherichia coli
10.1093/genetics/115.1.51 · 1987 · External reference
Structuring the bacterial genome: Y1-transposases associated with REP-BIME sequences †
10.1093/nar/gkr1198 · 2012 · External reference
Unresolved reference
2000 · External reference
Unresolved reference
1995 · External reference
Dynamics of bacterial insertion sequences: can transposition bursts help the elements persist?
10.1186/s12862-015-0560-5 · 2015 · External reference
Two Methods for Mapping and Visualizing Associated Data on Phylogeny Using Ggtree
10.1093/molbev/msy194 · 2018 · External reference