HOMD Banner
16S rRNA RefSeq: V15.23    Genomic RefSeq: V10.1
Comparison between HOMD and LANL ORALGEN (http://www.oralgen.org) Annotated Genomes
Genome Name HOMD/NCBI
Genome Information		 ORALGEN
Genome Information		 Has Oralgen Annotation Panel
in HOMD JBrowse?		 Other
Info
Contigs/
Molecules		Combined
Size (bps)		 Contigs/
Molecules		Combined
Size (bps)
Actinomyces naeslundii MG1 1 3,042,856 1 3,042,856 YES FTP *
Fusobacterium nucleatum ATCC 25586 ** 1 2,174,500 4 2,192,643 YES FTP *
Porphyromonas gingivalis ATCC 33277 1 2,354,886 1 2,354,886 YES FTP *
Porphyromonas gingivalis W83 * 1 2,343,476 1 2,343,479 YES FTP *
Prevotella intermedia 17 # 2 2,699,437 3 2,135,969 YES FTP *
Streptococcus gordonii Challis substr. CH1 1 2,196,662 1 2,196,662 YES FTP *
Streptococcus mitis NCTC 12261 1 2,045,857 1 2,045,857 YES FTP *
Streptococcus sanguinis SK36 1 2,388,435 1 2,388,435 YES FTP *
Treponema denticola ATCC 35405 ## 1 2,843,201 2 2,846,850 YES FTP *
Aggregatibacter actinomycetemcomitans HK1651
(Actinobacillus actinomycetemcomitans HK1651)		 1 2,105,332 2 2,130,910 NO FTP * *
Fusobacterium nucleatum subsp. polymorphum ATCC 10953
(Fusobacterium nucleatum polymorphum)		 14 2,428,298 2 2,441,532 NO FTP * *
Streptococcus mutans UA159 1 2,032,925 8 2,088,156 NO FTP * *
Tannerella forsythia ATCC 43037 1 3,405,521 5 3,505,077 NO FTP * *
* The Porphyromonas gingivalis W83 genomic sequence annotated by ORALGEN has the following 3 additional nucleotides. Although for convenience, we still provide an ORALGEN panel in the HOMD JBrowse (above) for this genome, please note that the coordination for the ORALGEN annotated genes will be 1,2 or 3 bases off when aligned to the HOMD genome: 
479,441 bp
NCBI:    G-CCT
Oralgen: GNCCT

880,452 bp
NCBI:    C-TTT
Oralgen: KYYTT

1,138,113 bp
NCBI:    A-AATT
Oralgen: ANAATT
** ORALGEN recorded 3 plasmids (pFN1,pKH9,pPA52) which NCBI does not have.
# In addition to the two chromosomes, ORALGEN has an additional sequence for plasmid pYHBi1.
## ORALGEN recorded a plasmid pTS1 which NCBI does not have.
* This FTP folder contains all the original ORALGEN data exported to Excel spread sheets
* Since the genomic sequences annotated by ORALGEN is different from the current updated genomic sequences annotated by HOMD, we provide a Oralgen gene ID => HOMD/NCBI gene ID mapping table based on the BLAST Search Result. In the provided FTP folder, please look for a file named either:

lanl_gene_id_2_ncbi_blastp.csv
or
lanl_gene_id_2_homd_blastp.csv
   ~ Contact George Chen (electronic mail: tchen at forsyth.org) if there's any question ~