MamMiBase: a mitochondrial genome database for mammalian phylogenetic studies.
MamMiBase, the mammalian mitochondrial genome database, is a relational database of complete mitochondrial genome sequences of mammalian species. The database is useful for phylogenetic analysis, since it allows a ready retrieval of nucleotide and aminoacid individual alignments, in three different formats (NEXUS for PAUP program, for MEGA program and for PHYLIP program) of the 13 protein coding mitochondrial genes. The user may download the sequences that are useful for him/her based on their parameters values, such as sequence length, p-distances, base content, transition transversion ratio, gamma, which are also given by MamMiBase. A simple phylogenetic tree (neighbor-joining tree with Jukes Cantor distance) is also available for download, useful for parameter calculations and other simple tasks.


BACKGROUND
MamMiBase is available at http://www.mammibase.lncc.br
Vasconcelos
Ana Tereza R de
AT
Laboratório Nacional de Computação Científica LNCC/MCT, Petrópolis, RJ, Brazil. atrv@lncc.br
Guimarães
Ana Carolina R
AC
Castelletti
Carlos Henrique M
CH
Caruso
Célia S
CS
Ribeiro
Cristina
C
Yokaichiya
Fabiano
F
Armôa
Geraldo R G
GR
Pereira
Gislaine da Silva P
Gda S
da Silva
Israel T
IT
Schrago
Carlos G
CG
Fernandes
Adélia L V
AL
da Silveira
Aline R
AR
Carneiro
André G
AG
Carvalho
Bruno M
BM
Viana
Carlos J M
CJ
Gramkow
Daniel
D
Lima
Franklin J
FJ
Corrêa
Luiz G G
LG
Mudado
Maurício de A
Mde A
Nehab-Hess
Pablo
P
Souza
Rangel de
Rd
Corrêa
Régis L
RL
Russo
Claudia A M
CA
D002874:Chromosome Mapping / Q000379:methods*; D004272:DNA, Mitochondrial / Q000145:classification* / Q000235:genetics*; D030561:Databases, Nucleic Acid; D020407:Internet; D010802:Phylogeny; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D014584:User-Computer Interface
D004272:DNA, Mitochondrial