Software

Description

Website

CGAP

Plastid genome collection, visualization, content comparison, and annotation tool

http://www.herbbol.org:8080/chloroplast

CpGAVAS/

CpGAVAS2

Integrated web server for annotating, visualizing, analyzing and submitting plastid genomes to GenBank

http://www.herbalgenomics.org/cpgavas; http://47.96.249.172:16019/analyzer/home

CpGDB

Database storing chloroplast genomes, gene sequences and annotation

http://gndu.ac.in/CpGDB/

CREx/CREx2

Visualizes most parsimonious gene order rearrangements between two species

http://pacosy.informatik.uni-leipzig.de/crex; http://pacosy.informatik.uni-leipzig.de/271-0-CREx2.html

DOGMA

Metazoan mitogenome gene annotation server for both mitogenomes and plastid genomes

https://dogma.ccbb.utexas.edu/

GeSeq

Fast, high-quality HMM-based organelle genome annotator, mainly for plastid genomes

https://chlorobox.mpimp-golm.mpg.de/geseq.html

EqualTDRL

Visualizes hypothetical series of gene order rearrangements between two species

http://pacosy.informatik.uni-leipzig.de/269-0-EqualTdrl.html

GenomeVx

Gene order visualization on small chromosomes and large plastids

http://wolfe.ucd.ie/genomevx/

Mitofish/ Mitoannotator

Annotation database and pipeline for fish mitogenomes

http://mitofish.aori.u-tokyo.ac.jp/

MITOS

Metazoan mitogenome gene annotation server

http://mitos.bioinf.uni-leipzig.de/index.py