MetaGene gene-finding program for metagenomics
2006/10/12
Hideki Noguchi
hide@cb.k.u-tokyo.ac.jp
Dept. Computational Biology,
Grad.Schl. Frontier Sciences, The University of Tokyo

MetaGene is a prokaryotic gene-finding program and can be widely applied to 
fragmented anonymous genomic sequences, such as metagenomic data.


usage: metagene [multi-fasta]


output format:

# [sequence name]
# gc = [gc%]
# model: [selected model (bacteria/archea)]
[start pos.] [end pos.] [strand] [frame] [score] [complete/partial]
.
.
.

*The value of [frame] (0/1/2) indicates the number of surplus (untranslated)
 nucleotides at the 5'-end of the predicted ORF.
*The value of [score] indicates the estimated score of predicted gene. All
 predicted genes are more than 0.
*The value of [complete/partial] indicates that the predicted gene structure
 is whether complete (contains both of start and stop codons) or partial
 (lacks start or stop or both of them).

