Remotely accessible blast databases

BLAST Databases Available for Remote Access

Tao Tao, Ph.D.
User Service
NCBI, NLM, NIH

TOC

1. Introduction
2. General Databases
3. Genome Specific Databases for Higher Organisms
4. Databases for Invertebrates
5. Databases for Protozoas
- 5.1 Databases for Various Plasmodia
- 5.2 Databases for Other Pathogenic Protozoa
6. Databases for Plants and Fungi
7. Databases under Genomes and Microbial Directories
8. SNP Databases
9. Trace Databases
10. Feedback

There is a large collection of databases available from NCBI BLAST server. They include the standard sets of nucleotide and protein databases as well as organism specific databases (through special blast pages). All of them are available for remote access through URLAPI and blastcl3 client.

To facilitate their access by our user community, we listed these databases in this document. The databases are grouped into several categories according to common characteristics such as their sequence nature, database subdirectory, or mostly by the BLAST Web pages from which they are accessible.

For databases without directory prefix, we can call them in URLAPI useing DATABASE=database. In blastcl3, we can use -d database. The database name should be exactly as it is given in the "DATABASE" column.

The following examples call the database refseq_rna in URLAPI and blastcl3, respectively.

http://www.ncbi.nlm.nih.gov/blast/Blast.cgi?DATABASE=refseq_rna&...

blastcl3 -d refseq_rna ....

For databases with directory prefix, we need to concatenate the strings under the "DB_DIR_PREFIX" and database name under "DATABASE".

The following examples call the database ref_contig under gpipe/9606/ in URLAPI and blastcl3, respectively.

http://www.ncbi.nlm.nih.gov/blast/Blast.cgi?DATABASE=gpipe/9606/ref_contig&...

blastcl3 -d gpipe/9606/ref_contig ....

Refer to netblast.html for more information on using blastcl3. Refer to BLAST URLAPI for more information on using URL encoded commands to access NCBI BLAST web server.

2. General Databases

In this section, we list databases available from the "Nucleotide", "Protein", and "Translated" sections of the NCBI BLAST homepage. Users should access these databases without directory prefix.

Table 2 Content of Genera BLAST Databases

DB_DIR_PREFIX DATABASE CONTENT

-¹ 10090_genomic mouse genomic

- 10116_genomic rat genomic

- 180454_genomic anopheles gambiae genomic

- 7070_genomic red flour beetle genomic

- 7460_genomic honey bee genomic

- 7955_genomic zebrafish genomic

- 9031_genomic chicken genomic

- 9544_genomic macaca genomic

- 9598_genomic chimp genomic

- 9606_genomic human genomic

- 9615_genomic dog genomic

- 9913_genomic cow genomic

- chromosome chromosomes

- other_genomic other genomic

- refseq_genomic refseq genomic

- refseq_rna refseq rna

- env_nt env_nt

- est est combined

- est_human est human

- est_mouse est mouse

- est_others est others

- sts sts

- gss gss

- htgs htgs

- month.est month est

- month.gss month gss

- month.htgs month htgs

- month.nt month nt

- month.patnt month patnt

- month.sts month sts

- monthnt month nt

Test/gpipe/9606/ allcontig_and_rna human genomic and transcripts

Test/gpipe/10090/ allcontig_and_rna mouse genomic and transcripts

- nt nt, nucleotide nr

- patnt pat nucleotide

- pdbnt pdb nucleotide

- wgs wgs

- UniVec UniVec vector library

- alu alu repeat

- danio.lib danio rerio repeats²

- humrep combined human repeat libraries²

- rodents.lib rodents repeats²

- nr nr, protein

- refseq_protein refseq protein

- swissprot swissprot protein

- pataa pat protein

- pdbaa pdb protein

- month.pataa month pat protein

- monthaa month protein

- alu alu repeat protein

- env_nr env protein

geo geo geo

cdsearch/ cdd cdd³

cdsearch/ oasis_cog cog³

cdsearch/ oasis_kog kog³

cdsearch/ oasis_pfam pfam³

cdsearch/ oasis_smart smart³

repeat/ repeat_3055 repeat_3055²

repeat/ repeat_31032 repeat_31032²

repeat/ repeat_35128 repeat_35128²

repeat/ repeat_3702 repeat_3702²

repeat/ repeat_40674 repeat_40674²

repeat/ repeat_4530 repeat_4530²

repeat/ repeat_4751 repeat_4751²

repeat/ repeat_6238 repeat_6238²

repeat/ repeat_6239 repeat_6239²

repeat/ repeat_7165 repeat_7165²

repeat/ repeat_7227 repeat_7227²

repeat/ repeat_7719 repeat_7719²

repeat/ repeat_7955 repeat_7955²

repeat/ repeat_9606 repeat_9606²

repeat/ repeat_9989 repeat_9989²

NOTE:

newly introduced on December 18,2006.
¹ - means no database prefix.
² Species-specific repeat databases. For example, to rodent repeat filter, we can use the following

blastcl3 -p blastn -F "R -d rodents.lib" ...
...&PROGRAM=blastn&FILTER=R+-d+rodents.lib& ...

³ These databases are meant for RPSBLAST, even though they do work with blastp URLAPI. To call them in blastcl3, use

blastcl3 -R T -p blastp -d cdsearch/cdd...
..&PROGRAM=blastp&SERVICE=rpsblast&DATABASE=cdsearch/cdd&...

3. Genome Specific Databases for Higher Organisms

Those databases are those accessible through the Genome Blast pages. Currently only a limited set of organisms has this special setup. Technically, these databases are broken into two subsets, one tied to genome build/annotation and another simply organism specific with regular update. We are not distinguish them here.

3.1 Blast Databases for Primates

The databases behind the primate genome blast pages are listed here.

Table 3.1 Databases for Primates

DB_DIR_PREFIX DATABASE CONTENT

gp/9606.9558/ AACC_scaffolds.fa human AACC scaffolds

gp/9606.9558/ AADB_scaffolds.fa human AADB scaffolds

gp/9606.9558/ cra_csa human celera csa

gp/9606.9558/ cra_cwga human celera cwga

gp/9606.9558/ cra_wga human celera wga

gp/9606.9558/ hs_bes human bes

gp/9606.9558/ hs_est human est

gp/9606.9558/ hs_genbank_prot human genbank protein

gp/9606.9558/ hs_genbank_rna human genbank rna

gp/9606.9558/ hs_htg human htgs

gp/9606.9558/ hs_refm human refseq mrna

gp/9606.9558/ hs_refp human refseq protein

gp/9606.9558/ hsc_tcag human chr 7 (toronto HSC)

gpipe/9606/ all_contig human all contig

gpipe/9606/ alt_contig human alt contig

gpipe/9606/ gnomon_prot human predicted protein

gpipe/9606/ gnomon_rna human predicted rna

gpipe/9606/ protein human build protein

gpipe/9606/ ref_contig human refseq contig

gpipe/9606/ rna human build rna

gp/9598.12467/ AACZ_contigs chimp AACZ contigs

gp/9598.12467/ AACZ_map_scaffolds.fa chimp AACZ map scaffolds.fa

gp/9598.12467/ AACZ_scaffolds.fa chimp AACZ scaffolds

gp/9598.12467/ AACZ_unmap_scaffolds.fa chimp AACZ unmap scaffolds

gp/9598.12467/ AADA_contigs chimp AADA contigs

gp/9598.12467/ alt_chimp_wgs chimp alt wgs contigs

gp/9598.12467/ ptr_bes chimp bes

gp/9598.12467/ ptr_est chimp est

gp/9598.12467/ ptr_genbank_prot chimp genbank protein

gp/9598.12467/ ptr_genbank_rna chimp genbank rna

gp/9598.12467/ ptr_htg chimp htgs

gp/9598.12467/ ptr_refm chimp refseq mrna

gp/9598.12467/ ptr_refp chimp refseq protein

gp/9598.12467/ ref_chimp_wgs chimp refseq wgs contigs

gp/9544.12536/ AANU_contigs Macaca mulatta AANU contigs

gpipe/9598/ all_contig chimp all contig

gpipe/9598/ alt_contig chimp alt contig

gpipe/9598/ gnomon_prot chimp predicted protein

gpipe/9598/ gnomon_rna chimp predicted rna

gpipe/9598/ protein chimp build protein

gpipe/9598/ ref_contig chimp refseq contig

gpipe/9598/ rna chimp build rna

gp/9544.12536/ AANU_map_scaffolds.fa Macaca mulatta AANU map scaffolds

gp/9544.12536/ AANU_scaffolds.fa Macaca mulatta AANU scaffolds

gp/9544.12536/ AANU_unmap_scaffolds.fa Macaca mulatta AANU unmap scaffolds

gp/9544.12536/ mm_bes Macaca mulatta bes

gp/9544.12536/ mm_est Macaca mulatta est

gp/9544.12536/ mm_genbank_prot Macaca mulatta genbank prot

gp/9544.12536/ mm_genbank_rna Macaca mulatta genbank rna

gp/9544.12536/ mm_htg Macaca mulatta htgs

gp/9544.12536/ mm_refm Macaca mulatta refseq mrna

gp/9544.12536/ mm_refp Macaca mulatta refseq protein

gp/9544.12536/ mm_wgs_contigs Macaca mulatta wgs contigs

gpipe/9544/ all_contig Macaca all contig

gpipe/9544/ gnomon_prot Macaca predicted protein

gpipe/9544/ gnomon_rna Macaca predicted rna

gpipe/9544/ protein Macaca build protein

gpipe/9544/ ref_contig Macaca refseq contig

gpipe/9544/ rna Macaca build rna

3.2 Databases for Model Rodents

The databases behind the mouse and rat genome blast pages are listed here.

Table 3.2 Databases for Mouse and Rat

DB_DIR_PREFIX DATABASE CONTENT

gp/10090.9559/ AAHY_map_scaffolds.fa mouse AAHY mapped scaffolds

gp/10090.9559/ AAHY_scaffolds mouse AAHY scaffolds

gp/10090.9559/ AAHY_unmap_scaffolds.fa mouse AAHY unmapped scaffolds

gp/10090.9559/ arachne mouse arachene contigs

gp/10090.9559/ cra_wga mouse celera wgs contigs

gp/10090.9559/ gene_trap mouse gene trap sequences

gp/10090.9559/ mm_bes mouse bes

gp/10090.9559/ mm_est mosue est

gp/10090.9559/ mm_genbank_prot mouse genbank protein

gp/10090.9559/ mm_genbank_rna mouse genbank rna

gp/10090.9559/ mm_htg mouse htg

gp/10090.9559/ mm_refm mouse refseq mrna

gp/10090.9559/ mm_refp mouse refseq protein

gpipe/10090/ all_contig mouse all contigs

gpipe/10090/ alt_contig mouse alt contigs

gpipe/10090/ gnomon_prot mouse predicted proteins

gpipe/10090/ gnomon_rna mouse predicted rna

gpipe/10090/ protein mouse build protein

gpipe/10090/ ref_contig mouse refseq contigs

gpipe/10090/ rna mouse build rna

gp/10116.10621/ AAHX_map_scaffolds.fa rat AAHX mapped scaffolds

gp/10116.10621/ AAHX_scaffolds.fa rat AAHX scaffolds

gp/10116.10621/ AAHX_unmap_scaffolds.fa rat AAHX umapped scaffolds

gp/10116.10621/ AAHX_wgs rat AAHX wgs contigs

gp/10116.10621/ rgsc_wgs_contigs rgsc wgs contigs

gp/10116.10621/ rn_bes rat bes

gp/10116.10621/ rn_est rat est

gp/10116.10621/ rn_genbank_prot rat genbank protein

gp/10116.10621/ rn_genbank_rna rat genbank rna

gp/10116.10621/ rn_htg rat htgs

gp/10116.10621/ rn_refm rat refseq mrna

gp/10116.10621/ rn_refp rat refseq protein

gpipe/10116/ all_contig rat all contigs

gpipe/10116/ alt_contig rat alt contigs

gpipe/10116/ gnomon_prot rat predicted proteins

gpipe/10116/ gnomon_rna rat predicted mrna

gpipe/10116/ protein rat build protein

gpipe/10116/ ref_contig rat refseq contig

gpipe/10116/ rna rat build rna

3.3 Databases for Large Mammal

The databases for cow and dog are listed here. Both has "complete" genomes with Mapviewer. Links to Mapviewer are not accessible through blastcl3.

Table 3.3 Databases for Dog and Cow

DB_DIR_PREFIX DATABASE CONTENT

gp/9615.10726/ AAEX_scaffolds.fa dog AAEX scaffolds

gp/9615.10726/ bi_cfa_wgs baylor dog wgs

gp/9615.10726/ cfa_bes dog bes

gp/9615.10726/ cfa_est dog est

gp/9615.10726/ cfa_genbank_protein dog genbank protein

gp/9615.10726/ cfa_genbank_rna dog genbank rna

gp/9615.10726/ cfa_htg dog htgs

gp/9615.10726/ cfa_refm dog refseq mrna

gp/9615.10726/ cfa_refp dog refseq protein

gp/9615.10726/ tigr_cfa_wgs tiger dog wgs

gp/9615.10726/ tigr_dog_extra tiger dog extra wgs

gpipe/9615/ all_contig dog all contig

gpipe/9615/ gnomon_prot dog predicted protein

gpipe/9615/ gnomon_rna dog predicted rna

gpipe/9615/ protein dog build protein

gpipe/9615/ ref_contig dog refseq contig

gpipe/9615/ rna dog build rna

gp/9913.10708/ AAFC_scaffolds.fa cow AAFC scaffolds

gp/9913.10708/ baylor_wgs_contigs baylor cow wgs contigs

gp/9913.10708/ bt_bes cow bes

gp/9913.10708/ bt_est cow est

gp/9913.10708/ bt_genbank_prot cow genbank protein

gp/9913.10708/ bt_genbank_rna cow genbank rna

gp/9913.10708/ bt_htg cow htgs

gp/9913.10708/ bt_refm cow refseq mrna

gp/9913.10708/ bt_refp cow refseq

gpipe/9913/ all_contig cow all contig

gpipe/9913/ gnomon_prot cow predicted protein

gpipe/9913/ gnomon_rna cow predicted rna

gpipe/9913/ protein cow build protein

gpipe/9913/ ref_contig cow refseq contig

gpipe/9913/ rna cow build rna

3.4 Databases for Other Mammals

The organsims listed here do not have complete genomes.

Table 3.4 Databases for Other Mammals

DB_DIR_PREFIX DATABASE CONTENT

gp/9685.10703/ AANG_contigs cat AANG wgs contigs

gp/9685.10703/ fca_bes cat bes

gp/9685.10703/ fca_est cat est

gp/9685.10703/ fca_genbank_prot cat genbank prot

gp/9685.10703/ fca_genbank_rna cat genbank rna

gp/9685.10703/ fca_htg cat htgs

gp/9685.10703/ fca_refm cat refseq mrna

gp/9685.10703/ fca_refp cat refseq protein

gp/9823.10718/ ssc_bes pig bes

gp/9823.10718/ ssc_est pig est

gp/9823.10718/ ssc_genbank_prot pig genbank_prot

gp/9823.10718/ ssc_genbank_rna pig genbank_rna

gp/9823.10718/ ssc_htg pig htg

gp/9823.10718/ ssc_refm pig refm

gp/9823.10718/ ssc_refp pig refp

gp/9940.10709/ oar_bes sheep bes

gp/9940.10709/ oar_est sheep est

gp/9940.10709/ oar_genbank_prot sheep genbank protein

gp/9940.10709/ oar_genbank_rna sheep genbank rna

gp/9940.10709/ oar_htg sheep htgs

gp/9940.10709/ oar_refm sheep refseq mrna

gp/9940.10709/ oar_refp sheep refseq protein

gp/9986.12818/ oc_bes rabbit bes

gp/9986.12818/ oc_est rabbit est

gp/9986.12818/ oc_genbank_prot rabbit genbank_prot

gp/9986.12818/ oc_genbank_rna rabbit genbank_rna

gp/9986.12818/ oc_htg rabbit htg

gp/9986.12818/ oc_wgs_contigs rabbit wgs_contigs

gp/13616.12560/ md_est opossum est

gp/13616.12560/ md_genbank_prot opossum genbank protein

gp/13616.12560/ md_genbank_rna opossum genbank rna

gp/13616.12560/ md_htg opossum htgs

gp/13616.12560/ md_refm opossum refseq mrna

gp/13616.12560/ md_refp opossum refseq protein

gp/13616.12560/ md_wgs_contigs opossum wgs contigs

gp/30611.13680/ 30611_genbank_prot Otolemur garnettii genbank protein

gp/30611.13680/ 30611_htg Otolemur garnettii htgs

gp/30611.13680/ 30611_wgs_contigs Otolemur garnettii wgs contigs

3.5 Databases for Vertebrates

Here are the BLAST databases for various vertebrates, of which, chicken and Zebrafish has completed genomes.

Table 3.5 Databases for Vertebrates

DB_DIR_PREFIX DATABASE CONTENT

gp/9031.10804/ gga_bes chicken bes

gp/9031.10804/ gga_est chicken est

gp/9031.10804/ gga_genbank_prot chicken genbak protein

gp/9031.10804/ gga_genbank_rna chicken genbank rna

gp/9031.10804/ gga_htg chicken htgs

gp/9031.10804/ gga_refm chicken refseq mrna

gp/9031.10804/ gga_refp chicken refseq protein

gp/9031.10804/ gga_wgs chicken wgs cotings

gpipe/9031/ all_contig chicken all contig

gpipe/9031/ gnomon_prot chicken predicted protein

gpipe/9031/ gnomon_rna chicken predicted rna

gpipe/9031/ protein chicken build protein

gpipe/9031/ ref_contig chicken refseq contig

gpipe/9031/ rna chicken build rna

gp/59729.12898/ tg_bes Taeniopygia guttata bes

gp/59729.12898/ tg_est Taeniopygia guttata est

gp/59729.12898/ tg_genbank_prot Taeniopygia guttata genbank protein

gp/59729.12898/ tg_genbank_rna Taeniopygia guttata genbank rna

gp/59729.12898/ tg_htg Taeniopygia guttata htgs

gp/7955.9557/ dr_bes zebrafish bes

gp/7955.9557/ dr_est zebrafish est

gp/7955.9557/ dr_genbank_prot zebrafish genbank protein

gp/7955.9557/ dr_genbank_rna zebrafish genbank rna

gp/7955.9557/ dr_htg zebrafish htgs

gp/7955.9557/ dr_refm zebrafish refseq mrna

gp/7955.9557/ dr_refp zebrafish refseq protein

gp/7955.9557/ sanger_wgs_contigs sanger zebrafish wgs contig

gpipe/7955/ all_contig zebrafish all contig

gpipe/7955/ gnomon_prot zebrafish predicted protein

gpipe/7955/ gnomon_rna zebrafish predicted rna

gpipe/7955/ protein zebrafish build protein

gpipe/7955/ ref_contig zebrafish refseq contig

gpipe/7955/ rna zebrafish build rna

gp/8364.10706/ str_bes xenopus tropicalis bes

gp/8364.10706/ str_est xenopus tropicalis est

gp/8364.10706/ str_genbank_prot xenopus tropicalis genbank protein

gp/8364.10706/ str_genbank_rna xenopus tropicalis rna

gp/8364.10706/ str_refm xenopus tropicalis refseq mrna

gp/8364.10706/ str_refp xenopus tropicalis refseq protein

gp/8364.10706/ xl_est xenopus laevis est

gp/8364.10706/ xl_genbank_rna xenopus laevis genbank rna

gp/8364.10706/ xla_genbank_prot xenopus laevis genbank protein

gp/8364.10706/ xtr_gbrna Combined xenopus genbank rna

gp/8364.10706/ xtr_htg xenopus tropicalis htgs

4. Databases for Invertebrates

Here are the BLAST databases for various invertebrates. They are separated into several groups.

4.1 Databases for Mosquitos and Drosophila

BLAST databases for two mosquitos (Andes and Anephole) and various Drosophila are listed here.

Table 4.1 Databases for Mosquitos and Drosophia

DB_DIR_PREFIX DATABASE CONTENT

gp/7159.9551/ 7159_bes Aedes aegypti bes

gp/7159.9551/ 7159_est Aedes aegypti est

gp/7159.9551/ 7159_genbank_prot Aedes aegypti genbank prot

gp/7159.9551/ 7159_genbank_rna Aedes aegypti genbank rna

gp/7159.9551/ 7159_htg Aedes aegypti htgs

gp/7159.9551/ 7159_wgs_contigs Aedes aegypti wgs contigs

gp/7165.9553/ 7165_bes Anopheles gambiae bes

gp/7165.9553/ 7165_est Anopheles gambiae est

gp/7165.9553/ 7165_genbank_prot Anopheles gambiae genbank prot

gp/7165.9553/ 7165_genbank_rna Anopheles gambiae genbank rna

gp/7165.9553/ 7165_refg Anopheles gambiae refseq genomic

gp/7165.9553/ 7165_refm Anopheles gambiae refseq mrna

gp/7165.9553/ 7165_refp Anopheles gambiae refseq protein

gp/7165.9553/ 7165_wgs_contigs Anopheles gambiae wgs contigs

gp/7227.9554/ baylor_dps_wgs_contigs baylor Drosophila pseudoobscura wgs contigs

gp/7227.9554/ dm_bes drosophila melanogaster bes

gp/7227.9554/ dm_est drosophila melanogaster est

gp/7227.9554/ dm_genbank_prot drosophila melanogaster genbank protein

gp/7227.9554/ dm_genbank_rna drosophila melanogaster genbank rna

gp/7227.9554/ dm_htg drosophila melanogaster htgs

gp/7227.9554/ dm_refc drosophila melanogaster refseq contig

gp/7227.9554/ dm_refg drosophila melanogaster refseq genomic

gp/7227.9554/ dm_refh drosophila melanogaster refseq heterochromatin

gp/7227.9554/ dm_refm drosophila melanogaster refseq mrna

gp/7227.9554/ dm_refp drosophila melanogaster refseq protein

gp/7227.9554/ dm_wgs_contigs drosophila melanogaster wgs contig

gpipe/7227/ gnomon_prot Drosophila melanogaster predicted protein

gpipe/7227/ gnomon_rna Drosophila melanogaster predicted rna

gp/7227.9554/ dps_genbank_prot Drosophila pseudoobscura genbank protein

gp/7227.9554/ dsi_bes Drosophila simulans bes

gp/7227.9554/ dsi_genbank_prot Drosophila simulans genbank prot

gp/7227.9554/ dsi_wgs_contigs Drosophila simulans wgs contigs

gp/7227.9554/ dvi_genbank_prot Drosophila virilis genbank prot

gp/7227.9554/ dya_est Drosophila yakuba est

gp/7227.9554/ dya_genbank_prot Drosophila yakuba genbank prot

gp/7227.9554/ dya_genbank_rna Drosophila yakuba genbank rna

gp/7227.9554/ dya_wgs_contigs Drosophila yakuba wgs contigs

gp/7234.12695/ dp_genbank_prot Drosophila persimilis genbank prot

gp/7234.12695/ dp_wgs_contigs Drosophila persimilis wgs contigs

gp/7237.12559/ dp_est Drosophila persimilis est

gp/7237.12559/ dp_genbank_prot Drosophila persimilis genbank prot

gp/7237.12559/ dp_htg Drosophila persimilis htg

gp/7237.12559/ dp_wgs_contigs Drosophila persimilis wgs contigs

gp/7238.12709/ ds_bes Drosophila sechellia bes

gp/7238.12709/ ds_genbank_prot Drosophila sechellia genbank prot

gp/7238.12709/ ds_wgs_contigs Drosophila sechellia wgs contigs

gp/7240.12463/ ds_bes Drosophila sechellia bes

gp/7240.12463/ ds_est Drosophila sechellia est

gp/7240.12463/ ds_genbank_prot Drosophila sechellia genbank prot

gp/7240.12463/ ds_genbank_rna Drosophila sechellia genbank rna

gp/7240.12463/ ds_wgs_contigs Drosophila sechellia wgs contigs

gp/7244.12687/ dv_bes Drosophila virilis bes

gp/7244.12687/ dv_est Drosophila virilis est

gp/7244.12687/ dv_genbank_prot Drosophila virilis genbank prot

gp/7244.12687/ dv_wgs_contigs Drosophila virilis wgs contigs

gp/7245.12265/ dy_est Drosophila yakuba est

gp/7245.12265/ dy_genbank_prot Drosophila yakuba genbank prot

gp/7245.12265/ dy_genbank_rna Drosophila yakuba genbank rna

gp/7245.12265/ dy_wgs_contigs Drosophila yakuba wgs contigs

4.2 Databases for Honey Bee and Red Flour Beetle

BLAST databases for honey bee and red flour beetle are listed in this table.

Table 4.2 Databases for Honey Bee and Red Flour Beetle

DB_DIR_PREFIX DATABASE CONTENT

gp/7460.9555/ AADG_scaffolds.fa honeybee AADG scaffold

gp/7460.9555/ ame_bes honeybee bes

gp/7460.9555/ ame_est honeybee est

gp/7460.9555/ ame_genbank_prot honeybee genbank protein

gp/7460.9555/ ame_genbank_rna honeybee genbank rna

gp/7460.9555/ ame_htg honeybee htgs

gp/7460.9555/ ame_refm honeybee refseq mrna

gp/7460.9555/ ame_refp honeybee refseq protein

gp/7460.9555/ ame_wgs honeybee wgs

gpipe/7460/ all_contig honey bee all contig

gpipe/7460/ alt_contig honey bee alt contig

gpipe/7460/ gnomon_prot honey bee predicted protein

gpipe/7460/ gnomon_rna honey bee predicted rna

gpipe/7460/ ogs_prot honey bee ogs_protein

gpipe/7460/ ogs_rna honey bee ogs_rna

gpipe/7460/ protein honey bee build protein

gpipe/7460/ ref_contig honey bee refseq contig

gpipe/7460/ rna honey bee build rna

gp/7070.12539/ tc_bes red flour beetle bes

gp/7070.12539/ tc_est red flour beetle est

gp/7070.12539/ tc_genbank_prot red flour beetle genbank prot

gp/7070.12539/ tc_genbank_rna red flour beetle genbank rna

gp/7070.12539/ tc_htg red flour beetle htgs

gp/7070.12539/ tc_refm red flour beetle refseq mrna

gp/7070.12539/ tc_refp red flour beetle refseq protein

gp/7070.12539/ tc_wgs_contigs red flour beetle wgs contigs

gpipe/7070/ all_contig red flour beetle all contig

gpipe/7070/ gnomon_prot red flour beetle predicted protein

gpipe/7070/ gnomon_rna red flour beetle predicted rna

gpipe/7070/ protein red flour beetle build protein

gpipe/7070/ ref_contig red flour beetle refseq contig

gpipe/7070/ rna red flour beetle build rna

4.3 Databases for Other Invertebrates

BLAST databases for other invertebrates are listed here.

Table 4.3 Databases for Other Invertebrates

DB_DIR_PREFIX DATABASE CONTENT

gp/7668.10728/ spu_bes sea urchin bes

gp/7668.10728/ spu_est sea urchin est

gp/7668.10728/ spu_genbank_prot sea urchin genbank protein

gp/7668.10728/ spu_genbank_rna sea urchin rna

gp/7668.10728/ spu_htg sea urchin htgs

gp/7668.10728/ spu_refm sea urchin refseq mrna

gp/7668.10728/ spu_refp sea urchin refseq protein

gp/7668.10728/ spu_wgs_contigs sea urchin wgs contig

gpipe/7668/ all_contig Sea Urchin all contig

gpipe/7668/ alt_contig Sea Urchin alt contig

gpipe/7668/ gnomon_prot Sea Urchin predicted protein

gpipe/7668/ gnomon_rna Sea Urchin predicted rna

gpipe/7668/ protein Sea Urchin build protein

gpipe/7668/ ref_contig Sea Urchin refseq contig

gpipe/7668/ rna Sea Urchin build rna

gp/6239.9548/ 6239_est nematode est

gp/6239.9548/ 6239_genbank_prot nematode genbank prot

gp/6239.9548/ 6239_genbank_rna nematode genbank rna

gp/6239.9548/ 6239_htg nematode htgs

gp/6239.9548/ 6239_refg nematode refseq genomic

gp/6239.9548/ 6239_refm nematode refseq mrna

gp/6239.9548/ 6239_refp nematode refseq protein

gpipe/6239/ gnomon_prot nematode predicted protein

gpipe/6239/ gnomon_rna nematode predicted rna

5. Databases for Protozoas

BLAST databases for protozoas are listed here. They are broken down into Plasmodium specific table and a table for other pathogenic protozoas.

5.1 Databases for Various Plasmodia

Databases for various Plasmodia are listed in this table.

Table 5.1 Databases for Plasmodium

DB_DIR_PREFIX DATABASE CONTENT

gp/5825.9537/ pcc_genbank_prot Plasmodium chabaudi chabaudi genbank prot

gp/5825.9537/ pcc_refm Plasmodium chabaudi chabaudi refseq mrna

gp/5825.9537/ pcc_refp Plasmodium chabaudi chabaudi refseq protein

gp/5825.9537/ pcc_wgs_contigs Plasmodium chabaudi chabaudi wgs contigs

gp/5833.9538/ 5833_est Plasmodium falciparum est

gp/5833.9538/ 5833_genbank_prot Plasmodium falciparum genbank prot

gp/5833.9538/ 5833_genbank_rna Plasmodium falciparum genbank rna

gp/5833.9538/ 5833_htg Plasmodium falciparum htg

gp/5833.9538/ 5833_refg Plasmodium falciparum refseq genomic

gp/5833.9538/ 5833_refm Plasmodium falciparum refseq mrna

gp/5833.9538/ 5833_refp Plasmodium falciparum refseq protein

gp/5833.9538/ 5833_wgs_contigs Plasmodium falciparum wgs contigs

gp/5861.9586/ pyoy_est Plasmodium yoelii yoelii est

gp/5861.9586/ pyoy_genbank_prot Plasmodium yoelii yoelii genbank prot

gp/5861.9586/ pyoy_genbank_rna Plasmodium yoelii yoelii genbank rna

gp/5861.9586/ pyoy_refm Plasmodium yoelii yoelii refseq mrna

gp/5861.9586/ pyoy_refp Plasmodium yoelii yoelii refseq protein

gp/5861.9586/ pyoy_wgs_contigs Plasmodium yoelii yoelii wgs contigs

5.2 Databases for Other Pathogenic Protozoa

Databases for other pathogenic protozoas are listed in this table.

Table 5.2 Databases for Other Pathogenic Protozoas

DB_DIR_PREFIX DATABASE CONTENT

gp/5807.9534/ 5807_bes Cryptosporidium parvum bes

gp/5807.9534/ 5807_est Cryptosporidium parvum est

gp/5807.9534/ 5807_genbank_prot Cryptosporidium parvum genbank prot

gp/5807.9534/ 5807_refg Cryptosporidium parvum refseq genomic

gp/5807.9534/ 5807_refm Cryptosporidium parvum refseq mrna

gp/5807.9534/ 5807_refp Cryptosporidium parvum refseq protein

gp/5807.9534/ 5807_wgs_contigs Cryptosporidium parvum wgs contigs

gp/44689.9565/ 44689_est Dictyostelium discoideum est

gp/44689.9565/ 44689_genbank_prot Dictyostelium discoideum genbank protein

gp/44689.9565/ 44689_genbank_rna Dictyostelium discoideum genbank rna

gp/44689.9565/ 44689_htg Dictyostelium discoideum htgs

gp/44689.9565/ 44689_refg Dictyostelium discoideum refseq genomic

gp/44689.9565/ 44689_refm Dictyostelium discoideum refseq mrna

gp/44689.9565/ 44689_refp Dictyostelium discoideum refseq protein

gp/44689.9565/ 44689_wgs_contigs Dictyostelium discoideumwgs wgs contigs

gp/6035.9545/ 6035_genbank_prot Encephalitozoon cuniculi genbank protein

gp/6035.9545/ 6035_refg Encephalitozoon cuniculi refseq genomic

gp/6035.9545/ 6035_refm Encephalitozoon cuniculi refseq mrna

gp/6035.9545/ 6035_refp Encephalitozoon cuniculi refseq protein

gp/33169.10630/ 33169_genbank_prot Eremothecium gossypii genbank protein

gp/33169.10630/ 33169_refg Eremothecium gossypii refseq genomic

gp/33169.10630/ 33169_refm Eremothecium gossypii refseq rna

gp/33169.10630/ 33169_refp Eremothecium gossypii refseq protein

gp/5875.9544/ 333668_refg Theileria parva strain Muguga refseq genomic

gp/5875.9544/ tpam_est Theileria parva strain Muguga est

gp/5875.9544/ tpam_est_est_others Theileria parva strain Muguga est est others

gp/5875.9544/ tpam_genbank_prot Theileria parva strain Muguga genbank prot

gp/5875.9544/ tpam_refg Theileria parva strain Muguga refseq genomic

gp/5875.9544/ tpam_refm Theileria parva strain Muguga refseq mrna

gp/5875.9544/ tpam_refp Theileria parva strain Muguga refseq protein

gp/5875.9544/ tpam_wgs_contigs Theileria parva strain Muguga wgs contigs

gp/333668.9544/ 333668_refg Theileria parva refseq genomic

gp/333668.9544/ tpam_refm Theileria parva refseq mrna

gp/333668.9544/ tpam_refp Theileria parva refseq protein

gp/185431.9529/ 185431_refg Trypanosoma brucei TREU927 refseq genomic

gp/185431.9529/ tbrt_refm Trypanosoma brucei TREU927 refseq mrna

gp/185431.9529/ tbrt_refp Trypanosoma brucei TREU927 refseq protein

gp/5691.9529/ 185431_refg Trypanosoma brucei refseq genomic

gp/5691.9529/ 185431_refg_other_genomic Trypanosoma brucei refseq genomic other genomic

gp/5691.9529/ tbrt_bes Trypanosoma brucei bes

gp/5691.9529/ tbrt_est Trypanosoma brucei est

gp/5691.9529/ tbrt_genbank_prot Trypanosoma brucei genbank prot

gp/5691.9529/ tbrt_genbank_rna Trypanosoma brucei genbank rna

gp/5691.9529/ tbrt_htg Trypanosoma brucei htg

gp/5691.9529/ tbrt_refm Trypanosoma brucei refseq mrna

gp/5691.9529/ tbrt_refp Trypanosoma brucei refseq protein

gp/5691.9529/ tbrt_wgs_contigs Trypanosoma brucei wgs contigs

6. Databases for Plants and Fungi

Databases for various plants and fungi are listed here.

6.1 Databases for Grains

Databases for various agriculcurally important grains are listed in this table.

Table 5.1 Databases for Grains

DB_DIR_PREFIX DATABASE CONTENT

gp/4498.9510/ 4498_est Avena sativa est

gp/4498.9510/ 4498_genbank_prot Avena sativa genbank protein

gp/4498.9510/ 4498_genbank_rna Avena sativa genbank rna

gp/3847.9507/ 3847_bes Glycine max bes

gp/3847.9507/ 3847_est Glycine max est

gp/3847.9507/ 3847_genbank_prot Glycine max genbank protein

gp/3847.9507/ 3847_genbank_rna Glycine max genbank rna

gp/3847.9507/ 3847_htg Glycine max htgs

gp/3847.9507/ 3847_refg Glycine max refseq genomic

gp/3847.9507/ 3847_refp Glycine max refseq protein

gp/4513.9511/ 4513_est Hordeum vulgare est

gp/4513.9511/ 4513_genbank_prot Hordeum vulgare genbank protein

gp/4513.9511/ 4513_genbank_rna Hordeum vulgare genbank rna

gp/4530.9512/ 39946_bes Oryza sativa (indica cultivar) bes

gp/4530.9512/ 39946_est Oryza sativa (indica cultivar) est

gp/4530.9512/ 39946_htg Oryza sativa (indica cultivar) htgs

gp/4530.9512/ 39946_wgs_contigs Oryza sativa (indica cultivar) wgs contigs

gp/4530.9512/ 4530_bes Oryza sativa bes

gp/4530.9512/ 4530_est Oryza sativa est

gp/4530.9512/ 4530_genbank_prot Oryza sativa genbank protein

gp/4530.9512/ 4530_genbank_rna Oryza sativa genbank rna

gp/4530.9512/ 4530_htg Oryza sativa htgs

gp/4530.9512/ 4530_refg Oryza sativa refseq genomic

gp/4530.9512/ 4530_refm Oryza sativa refseq mrna

gp/4530.9512/ 4530_refp Oryza sativa refseq protein

gp/4530.9512/ 4530_wgs_contigs Oryza sativa wgs contigs

gp/4530.9512/ osa_bes Oryza sativa bes

gp/4530.9512/ osa_est Oryza sativa est

gp/4530.9512/ osa_genbank_prot Oryza sativa genbank protein

gp/4530.9512/ osa_refp Oryza sativa refseq protein

gp/4530.9512/ osac_bes Oryza sativa (japonica cultivar) bes

gp/4530.9512/ osac_est Oryza sativa (japonica cultivar) est

gp/4530.9512/ osac_genbank_prot Oryza sativa (japonica cultivar) genbank protein

gp/4530.9512/ osac_genbank_rna Oryza sativa (japonica cultivar) genbank rna

gp/4530.9512/ osac_htg Oryza sativa (japonica cultivar) htgs

gp/4530.9512/ osac_refg Oryza sativa (japonica cultivar) refseq genomic

gp/4530.9512/ osac_refm Oryza sativa (japonica cultivar) refseq mrna

gp/4530.9512/ osac_refp Oryza sativa (japonica cultivar) refseq protein

gp/4530.9512/ osac_wgs_contigs Oryza sativa (japonica cultivar) wgs contigs

gp/4558.10785/ 4558_est Sorghum bicolor est

gp/4558.10785/ 4558_genbank_prot Sorghum bicolor genbank protein

gp/4558.10785/ 4558_genbank_rna Sorghum bicolor genbank rna

gp/4558.10785/ 4558_htg Sorghum bicolor htgs

gp/4558.10785/ 4558_refg Sorghum bicolor refseq genomic

gp/4565.9513/ 4565_bes Triticum aestivum bes

gp/4565.9513/ 4565_est Triticum aestivum est

gp/4565.9513/ 4565_genbank_prot Triticum aestivum genbank protein

gp/4565.9513/ 4565_genbank_rna Triticum aestivum genbank rna

gp/4565.9513/ 4565_htg Triticum aestivum htgs

gp/4565.9513/ 4565_refg Triticum aestivum refseq genomic

gp/4565.9513/ 4565_refp Triticum aestivum refseq protein

gp/4577.9514/ 381124_bes Zea mays subsp. mays bes

gp/4577.9514/ 381124_est Zea mays subsp. mays est

gp/4577.9514/ 381124_genbank_prot Zea mays subsp. mays genbank protein

gp/4577.9514/ 381124_genbank_rna Zea mays subsp. mays genbank rna

gp/4577.9514/ 381124_htg Zea mays subsp. mays htgs

gp/4577.9514/ 381124_refg Zea mays subsp. mays refseq genomic

gp/4577.9514/ 381124_refp Zea mays subsp. mays refseq protein

gp/381124.9514/ 381124_bes Zea mays subsp. mays bes

gp/381124.9514/ 381124_genbank_prot Zea mays subsp. mays genbank protein

gp/381124.9514/ 381124_refg Zea mays subsp. mays refseq genomic

gp/381124.9514/ 381124_refp Zea mays subsp. mays refseq protein

6.2 Databases for Other Plants

Databases for variety of other non-grain plants are listed in this table.

Table 6.2 Databases for Other Plants

DB_DIR_PREFIX DATABASE CONTENT

gp/3702.9506/ at_bes arabidopsis bes

gp/3702.9506/ at_est arabidopsis est

gp/3702.9506/ at_genbank_prot arabidopsis genbank protein

gp/3702.9506/ at_genbank_rna arabidopsis genbank rna

gp/3702.9506/ at_htg arabidopsis htgs

gp/3702.9506/ at_refg arabidopsis refseq genomic

gp/3702.9506/ at_refm arabidopsis refseq mrna

gp/3702.9506/ at_refp arabidopsis refseq protein

gp/4686.16855/ 4686_est Asparagus officinalis est

gp/4686.16855/ 4686_est_est_others Asparagus officinalis est estothers

gp/4686.16855/ 4686_genbank_prot Asparagus officinalis genbank protein

gp/4679.12548/ 4679_est Allium cepa est

gp/4679.12548/ 4679_genbank_prot Allium cepa genbank protein

gp/4679.12548/ 4679_genbank_rna Allium cepa genbank rna

gp/161934.12562/ 161934_est beet est

gp/161934.12562/ 161934_genbank_prot beet genbank protein

gp/161934.12562/ 161934_genbank_rna beet genbank rna

gp/161934.12562/ 161934_refg beet refseq genomic

gp/161934.12562/ 161934_refp beet refseq protein

gp/161934.12562/ 3555_est beet (subsp vulgaris) est

gp/161934.12562/ 3555_genbank_prot beet (subsp vulgaris) genbank protein

gp/161934.12562/ 3555_genbank_rna beet (subsp vulgaris) genbank rna

gp/161934.12562/ 3555_refg beet (subsp vulgaris) refseq genomic

gp/161934.12562/ 3555_refp beet (subsp vulgaris) refseq protein

gp/3711.12578/ br_bes Brassica rapa bes

gp/3711.12578/ br_est Brassica rapa est

gp/3711.12578/ br_genbank_prot Brassica rapa genbank protein

gp/3711.12578/ br_genbank_rna Brassica rapa genbank rna

gp/3711.12578/ br_htg Brassica rapa htgs

gp/3712.12577/ 3712_est Brassica oleracea est

gp/3712.12577/ 3712_genbank_prot Brassica oleracea genbank protein

gp/3712.12577/ 3712_genbank_rna Brassica oleracea genbank rna

gp/34305.10747/ lj_bes Lotus japonicus bes

gp/34305.10747/ lj_est Lotus japonicus est

gp/34305.10747/ lj_genbank_prot Lotus japonicus genbank protein

gp/34305.10747/ lj_genbank_rna Lotus japonicus genbank rna

gp/34305.10747/ lj_htg Lotus japonicus htgs

gp/34305.10747/ lj_refg Lotus japonicus refseq genomic

gp/34305.10747/ lj_refp Lotus japonicus refseq protein

gp/3879.13214/ 3879_est Medicago sativa est

gp/3879.13214/ 3879_genbank_prot Medicago sativa genbank protein

gp/3879.13214/ 3879_genbank_rna Medicago sativa genbank rna

gp/3880.9508/ 3880_bes Medicago truncatula bes

gp/3880.9508/ 3880_est Medicago truncatula est

gp/3880.9508/ 3880_genbank_prot Medicago truncatula genbank protein

gp/3880.9508/ 3880_genbank_rna Medicago truncatula genbank rna

gp/3880.9508/ 3880_htg Medicago truncatula htgs

gp/3880.9508/ 3880_refg Medicago truncatula refseq genomic

gp/3983.13628/ me_bes Manihot esculenta bes

gp/3983.13628/ me_est Manihot esculenta est

gp/3983.13628/ me_genbank_prot Manihot esculenta genbank protein

gp/3983.13628/ me_genbank_rna Manihot esculenta genbank rna

gp/4097.13234/ 4097_est Nicotiana tabacum est

gp/4097.13234/ 4097_genbank_prot Nicotiana tabacum genbank protein

gp/4097.13234/ 4097_genbank_rna Nicotiana tabacum genbank rna

gp/4097.13234/ 4097_refg Nicotiana tabacum refseq genomic

gp/4097.13234/ 4097_refp Nicotiana tabacum refseq protein

gp/4081.9509/ 4081_bes Solanum lycopersicum bes

gp/4081.9509/ 4081_est Solanum lycopersicum est

gp/4081.9509/ 4081_genbank_prot Solanum lycopersicum genbank protein

gp/4081.9509/ 4081_genbank_rna Solanum lycopersicum genbank rna

gp/4081.9509/ 4081_htg Solanum lycopersicum htgs

gp/4081.9509/ 4081_refg Solanum lycopersicum refseq genomic

gp/4081.9509/ 4081_refp Solanum lycopersicum refseq protein

gp/4113.12984/ 4113_bes Solanum tuberosum bes

gp/4113.12984/ 4113_est Solanum tuberosum est

gp/4113.12984/ 4113_genbank_prot Solanum tuberosum genbank protein

gp/4113.12984/ 4113_genbank_rna Solanum tuberosum genbank rna

gp/4113.12984/ 4113_refg Solanum tuberosum refseq genomic

gp/4113.12984/ 4113_refp Solanum tuberosum refseq protein

gp/88036.13079/ 88036_est Selaginella moellendorffii est

gp/88036.13079/ 88036_htg Selaginella moellendorffii htg

gp/3694.10770/ 3694_est Populus trichocarpa est

gp/3694.10770/ 3694_genbank_prot Populus trichocarpa genbank protein

gp/3694.10770/ 3694_genbank_rna Populus trichocarpa genbank rna

gp/3694.10770/ 3694_htg Populus trichocarpa htgs

gp/3694.10770/ 3694_refg Populus trichocarpa refseq genomic

gp/3694.10770/ 3694_wgs_contigs Populus trichocarpa wgs contigs

gp/29760.12992/ 29760_bes Vitis vinifera bes

gp/29760.12992/ 29760_est Vitis vinifera est

gp/29760.12992/ 29760_genbank_prot Vitis vinifera genbank protein

gp/29760.12992/ 29760_genbank_rna Vitis vinifera genbank rna

gp/29760.12992/ 29760_refg Vitis vinifera refseq genomic

gp/29760.12992/ 29760_refp Vitis vinifera refseq protein

6.3 Databases for Various Fungi

Databases for various fungi are divided into several categories: non-pathogenic, human pathogenic, and plant pathogenic.

6.3.1 Databases for Non-Pathogenic Fungi

This group includes baker yeast, fission yeast, and other non-pathogenic fungi.

Table 6.3.1 Databases for Non-Pathogenic Fungi

DB_DIR_PREFIX DATABASE CONTENT

gp/4896.9517/ 4896_est Schizosaccharomyces pombe est

gp/4896.9517/ 4896_genbank_prot Schizosaccharomyces pombe genbank protein

gp/4896.9517/ 4896_genbank_rna Schizosaccharomyces pombe genbank rna

gp/4896.9517/ 4896_refg Schizosaccharomyces pombe refseq genomic

gp/4896.9517/ 4896_refm Schizosaccharomyces pombe refseq mrna

gp/4896.9517/ 4896_refp Schizosaccharomyces pombe refseq protein

gp/4932.9518/ AAEG_contigs Saccharomyces cerevisiae AAEG wgs contigs

gp/4932.9518/ AAEG_scaffolds.fa Saccharomyces cerevisiae AAEGscaffolds

gp/4932.9518/ AAFW_contigs Saccharomyces cerevisiae AAFW wgs contigs

gp/4932.9518/ sce_est Saccharomyces cerevisiae est

gp/4932.9518/ sce_genbank_prot Saccharomyces cerevisiae genbank protein

gp/4932.9518/ sce_genbank_rna Saccharomyces cerevisiae genbank rna

gp/4932.9518/ sce_refg Saccharomyces cerevisiae refseq genomic

gp/4932.9518/ sce_refp Saccharomyces cerevisiae refseq protein

gp/4932.9518/ wgs_contigs Saccharomyces cerevisiae all wgs contigs

gp/5141.9522/ 5141_est Neurospora crassa est

gp/5141.9522/ 5141_genbank_prot Neurospora crassa genbank prot

gp/5141.9522/ 5141_genbank_rna Neurospora crassa genbank rna

gp/5141.9522/ 5141_refg Neurospora crassa refseq genomic

gp/5141.9522/ 5141_refm Neurospora crassa refseq mrna

gp/5141.9522/ 5141_refp Neurospora crassa refseq protein

gp/5141.9522/ 5141_wgs_contigs Neurospora crassa wgs contigs

gp/4952.12364/ 4952_genbank_prot Yarrowia lipolytica genbank protein

gp/4952.12364/ 4952_refg Yarrowia lipolytica refseq genomic

gp/4952.12364/ 4952_refm Yarrowia lipolytica refseq mrna

gp/4952.12364/ 4952_refp Yarrowia lipolytica refseq protein

gp/4959.12365/ 4959_genbank_prot Debaryomyces hansenii genbank protein

gp/4959.12365/ 4959_refg Debaryomyces hansenii refseq genomic

gp/4959.12365/ 4959_refm Debaryomyces hansenii refseq mrna

gp/4959.12365/ 4959_refp Debaryomyces hansenii refseq protein

6.3.2 Databases for Human Pathogenic Fungi

Databases for human pathogenic fungi are listed here.

Table 6.3.2 Databases for Human Pathogenic Fungi

DB_DIR_PREFIX DATABASE CONTENT

gp/5085.9521/ 5085_est Aspergillus fumigatus est

gp/5085.9521/ 5085_genbank_prot Aspergillus fumigatus genbank prot

gp/5085.9521/ 5085_genbank_rna Aspergillus fumigatus genbank rna

gp/5085.9521/ 5085_refg Aspergillus fumigatus refseq genomic

gp/5085.9521/ 5085_refm Aspergillus fumigatus refseq mrna

gp/5085.9521/ 5085_refp Aspergillus fumigatus refseq protein

gp/5085.9521/ 5085_wgs_contigs Aspergillus fumigatus wgs contigs

gp/5476.9526/ cal_est Candida albicans est

gp/5476.9526/ cal_genbank_prot Candida albicans genbank prot

gp/5476.9526/ cal_genbank_rna Candida albicans genbank rna

gp/5476.9526/ cal_refm Candida albicans refseq mrna

gp/5476.9526/ cal_refp Candida albicans refseq protein

gp/5476.9526/ cal_wgs_contigs Candida albicans wgs contigs

gp/5478.12362/ 5478_genbank_prot Candida glabrata genbank prot

gp/5478.12362/ 5478_refg Candida glabrata refseq genomic

gp/5478.12362/ 5478_refm Candida glabrata refseq mrna

gp/5478.12362/ 5478_refp Candida glabrata refseq protein

gp/5478.12362/ cglc_genbank_prot Candida glabrata genbank prot

gp/5478.12362/ cglc_refm Candida glabrata refseq mrna

gp/5478.12362/ cglc_refp Candida glabrata refseq protein

6.3.3 Databases for Plant Pathogenic Fungi

Databases for plant pathogenic fungi are listed here.

Table 6.3.3 Databases for Plant Pathogenic Fungi

DB_DIR_PREFIX DATABASE CONTENT

gp/5207.9581/ 5207_est Filobasidiella neoformans est

gp/5207.9581/ 5207_genbank_prot Filobasidiella neoformans genbank prot

gp/5207.9581/ 5207_genbank_rna Filobasidiella neoformans genbank rna

gp/5207.9581/ 5207_refg Filobasidiella neoformans refseq genomic

gp/5207.9581/ 5207_refm Filobasidiella neoformans refseq mrna

gp/5207.9581/ 5207_refp Filobasidiella neoformans refseq protein

gp/5207.9581/ 5207_wgs_contigs Filobasidiella neoformans wgs contigs

gp/5270.9595/ 5270_est Ustilago maydis est

gp/5270.9595/ 5270_genbank_prot Ustilago maydis genbank prot

gp/5270.9595/ 5270_refg Ustilago maydis refseq genomic

gp/5270.9595/ 5270_refm Ustilago maydis refseq mrna

gp/5270.9595/ 5270_refp Ustilago maydis refseq protein

gp/5270.9595/ 5270_wgs_contigs Ustilago maydis wgs contigs

gp/5518.9568/ 5518_est Gibberella zeae est

gp/5518.9568/ 5518_genbank_prot Gibberella zeae genbank prot

gp/5518.9568/ 5518_genbank_rna Gibberella zeae genbank rna

gp/5518.9568/ 5518_refg Gibberella zeae refseq genomic

gp/5518.9568/ 5518_refm Gibberella zeae refseq mrna

gp/5518.9568/ 5518_refp Gibberella zeae refseq protein

gp/5518.9568/ 5518_wgs_contigs Gibberella zeae wgs contigs

gp/148305.9583/ 148305_bes rice blast fungus bes

gp/148305.9583/ 148305_est rice blast fungus est

gp/148305.9583/ 148305_genbank_prot rice blast fungus genbank protein

gp/148305.9583/ 148305_genbank_rna rice blast fungus genbank rna

gp/148305.9583/ 148305_htg rice blast fungus htgs

gp/148305.9583/ 148305_refg rice blast fungus refseq genomic

gp/148305.9583/ 148305_refm rice blast fungus refseq mrna

gp/148305.9583/ 148305_refp rice blast fungus refseq protein

gp/148305.9583/ 148305_wgs_contigs rice blast fungus wgs contigs

7. Databases under Genomes and Microbial Directories

Databases under these two directories are those accessible from the "Microbial Genomes", "Other Eukaryotes", and "Plants" BLAST pages.

7.1 Databases under Genomes Directory

These databases are mostly for various plants and a few non-plant model organisms. The content may overplap with other plant or organism specific databases mentioned in previous sections.

Table 7.1 Databases Under Genomes Directory

DATABASE Organism Name CONTENT¹

genomes 110835 Eragrostis tef est

genomes 112509 Hordeum vulgare subsp. vulgare est

genomes 161934 Beta vulgaris est

genomes 2711 Citrus sinensis est

genomes 29730 Gossypium raimondii est

genomes 29760 Vitis vinifera est

genomes 3330 Picea glauca est

genomes 3332 Picea sitchensis est

genomes 3352 Pinus taeda est

genomes 338618 Aquilegia formosa x Aquilegia pubescens est

genomes 34305 Lotus japonicus est

genomes 3635 Gossypium hirsutum est

genomes 3694 Populus trichocarpa est

genomes 3695 Populus trichocarpa x Populus deltoides est

genomes 3702 Arabidopsis thaliana est

genomes 3708 Brassica napus est

genomes 3750 Malus x domestica est

genomes 3760 Prunus persica est

genomes 3847 Glycine max est

genomes 3880 Medicago truncatula est

genomes 3983 Manihot esculenta est

genomes 4081 Solanum lycopersicum est

genomes 4113 Solanum tuberosum est

genomes 4232 Helianthus annuus est

genomes 4236 Lactuca sativa est

genomes 4513 Hordeum vulgare est

genomes 4530 Oryza sativa est

genomes 4546 Saccharum est

genomes 4550 Secale cereale est

genomes 4558 Sorghum bicolor est

genomes 4565 Triticum aestivum est

genomes 4577 Zea mays est

genomes 4679 Allium cepa est

genomes 47664 Populus tremula x Populus tremuloides est

genomes 75943 Lactuca serriolaest

genomes 85681 Citrus clementina est

genomes Giardia Giardia

genomes ara arabidopsis protein

genomes ara_chr arabidopsis chr

genomes barley barley

genomes beet beet

genomes c_briggsae c_briggsae wgs

genomes c_elegans c_elegans mRNA

genomes c_elegans_chr c_elegans chr

genomes cionaWGS Ciona intestinalis WGS

genomes corn corn

genomes lotus lotus

genomes oat oat

genomes plant plant

genomes prok prokaryotic protein

genomes rice rice protein

genomes riceIndicaWGS riceIndicaWGS

genomes riceJaponicaWGS riceJaponicaWGS

genomes rice_mrna rice_mrna

genomes soybean soybean

genomes tomato tomato

genomes wheat wheat

Note:
¹ The databases named with taxids are mostly plant est databases. Most of the databases are nucleotide unless specified otherwise.

7.2 Databases under Microbial Directory

The databases here are those accessible from the "Other Eukaryotes" and "Microbial Genomes" BLAST pages. They are named with the organism's taxonomy id. The DB_DIR_PREFIX column is merged with the DATABASE column. To call a database, use the text string in the DATABASE column. The third column list the type of database available for that organism: n for nucleotide, p for protein, and n + p for both.

For example, we can use the following ways to search against "E.coli O157:H7 str. Sakai" protein database:

blastcl3 -p blastp -d Microbial/386585 -i ...
...&PROGRAM=blastp&DATABASE=Microbial/386585&QUEYR=...

Note that we can use blastp to search against the protein dataset since the CONTENT column for this organism has "n + p".

Table 7.2 Databases for Microorganisms

DATABASE Organism Name CONTENT

Microbial/100226 Streptomyces coelicolor A3(2) n + p

Microbial/10090 Mus musculus n + p

Microbial/10116 Rattus norvegicus n only

Microbial/10141 Cavia porcellus n only

Microbial/101510 Rhodococcus sp. RHA1 n + p

Microbial/10243 Cowpox virus n + p

Microbial/10258 Orf virus n + p

Microbial/10261 Fowlpox virus n + p

Microbial/10266 Sheeppox virus n + p

Microbial/10271 Rabbit fibroma virus n + p

Microbial/10276 Swinepox virus n + p

Microbial/10317 Cercopithecine herpesvirus 2 n + p

Microbial/10325 Cercopithecine herpesvirus 1 n + p

Microbial/10331 Equid herpesvirus 4 n + p

Microbial/10345 Suid herpesvirus 1 n + p

Microbial/103690 Nostoc sp. PCC 7120 n + p

Microbial/10372 Human herpesvirus 7 n + p

Microbial/10385 Bovine herpesvirus 4 n + p

Microbial/10386 Gallid herpesvirus 1 n + p

Microbial/10390 Gallid herpesvirus 2 n + p

Microbial/10397 Tupaiid herpesvirus 1 n + p

Microbial/10449 Lymantria dispar MNPV n + p

Microbial/10454 Spodoptera exigua MNPV n + p

Microbial/10464 Agrotis segetum granulovirus n + p

Microbial/10468 Helicoverpa zea SNPV n + p

Microbial/10493 Frog virus 3 n + p

Microbial/10506 Paramecium bursaria Chlorella virus 1 n + p

Microbial/10536 Simian adenovirus n + p

Microbial/106331 Callitrichine herpesvirus 3 n + p

Microbial/106370 Frankia sp. CcI3 n + p

Microbial/10665 Enterobacteria phage T4 n + p

Microbial/10677 Enterobacteria phage Mu n + p

Microbial/10679 Enterobacteria phage P2 n + p

Microbial/107806 Buchnera aphidicola str. APS (Acyrthosiphon pisum) n + p

Microbial/10798 Human parvovirus B19 n + p

Microbial/110662 Synechococcus sp. CC9605 n + p

Microbial/11309 unidentified influenza virus n + p

Microbial/1140 Synechococcus elongatus PCC 7942 n + p

Microbial/114416 Lactococcus phage ul36 n + p

Microbial/1148 Synechocystis sp. PCC 6803 n + p

Microbial/115711 Chlamydophila pneumoniae AR39 n + p

Microbial/115713 Chlamydophila pneumoniae CWL029 n + p

Microbial/115987 Aeromonas phage 44RR2.8t n + p

Microbial/117575 Chlamydia pneumoniae phage CPAR39 n + p

Microbial/119857 Francisella tularensis subsp. holarctica n + p

Microbial/121723 Photobacterium sp. SKA34 n + p

Microbial/122586 Neisseria meningitidis MC58 n + p

Microbial/122587 Neisseria meningitidis Z2491 n + p

Microbial/12355 Enterobacteria phage T1 n + p

Microbial/12407 Pseudomonas phage PsP3 n + p

Microbial/129727 Bovine papular stomatitis virus n + p

Microbial/129953 Bovine adenovirus A n + p

Microbial/130310 Human adenovirus D n + p

Microbial/130369 Porcine adenovirus A n + p

Microbial/136084 Roseobacter phage SIO1 n + p

Microbial/13616 Monodelphis domestica n only

Microbial/137071 Plasmodium falciparum HB3 n only

Microbial/138119 Desulfitobacterium hafniense Y51 n + p

Microbial/138677 Chlamydophila pneumoniae J138 n + p

Microbial/148363 Helicoverpa armigera nucleopolyhedrovirus G4 n + p

Microbial/150340 Vibrio sp. Ex25 n + p

Microbial/151534 Bacteriophage bIL311 n + p

Microbial/151535 Bacteriophage bIL285 n + p

Microbial/151536 Bacteriophage bIL286 n + p

Microbial/151537 Bacteriophage bIL309 n + p

Microbial/151538 Bacteriophage bIL310 n + p

Microbial/151539 Bacteriophage bIL312 n + p

Microbial/151599 Bacteriophage B3 n + p

Microbial/154334 Cercopithecine herpesvirus 17 n + p

Microbial/155148 Enterobacteria phage HK620 n + p

Microbial/155864 Escherichia coli O157:H7 EDL933 n + p

Microbial/155919 Xylella fastidiosa Dixon n + p

Microbial/155920 Xylella fastidiosa Ann-1 n + p

Microbial/156586 Flavobacteria bacterium BBFL7 n + p

Microbial/156889 Magnetococcus sp. MC-1 n + p

Microbial/157539 Plasmid pCD4 n + p

Microbial/1580 Lactobacillus brevis n + p

Microbial/1585 Lactobacillus delbrueckii subsp. bulgaricus n + p

Microbial/158878 Staphylococcus aureus subsp. aureus Mu50 n + p

Microbial/158879 Staphylococcus aureus subsp. aureus N315 n + p

Microbial/159087 Dechloromonas aromatica RCB n + p

Microbial/159252 Planaria asexual strain-specific virus-like element type 1 n + p

Microbial/1596 Lactobacillus gasseri n + p

Microbial/160488 Pseudomonas putida KT2440 n + p

Microbial/160490 Streptococcus pyogenes M1 GAS n + p

Microbial/160492 Xylella fastidiosa 9a5c n + p

Microbial/163164 Wolbachia endosymbiont of Drosophila melanogaster n + p

Microbial/164328 Phytophthora ramorum n only

Microbial/164756 Mycobacterium sp. MCS n + p

Microbial/164757 Mycobacterium sp. JLS n + p

Microbial/165597 Crocosphaera watsonii WH 8501 n + p

Microbial/167539 Prochlorococcus marinus subsp. marinus str. CCMP1375 n + p

Microbial/167879 Colwellia psychrerythraea 34H n + p

Microbial/1680 Bifidobacterium adolescentis n + p

Microbial/169683 Pseudomonas phage phiKZ n + p

Microbial/169963 Listeria monocytogenes EGD-e n + p

Microbial/170187 Streptococcus pneumoniae TIGR4 n + p

Microbial/170617 Adoxophyes orana granulovirus n + p

Microbial/171101 Streptococcus pneumoniae R6 n + p

Microbial/174633_16685 Candidatus Kuenenia stuttgartiensis n + p

Microbial/175950 Salmonella typhimurium phage ST64B n + p

Microbial/176106 Sulfolobus islandicus filamentous virus n + p

Microbial/176279 Staphylococcus epidermidis RP62A n + p

Microbial/176280 Staphylococcus epidermidis ATCC 12228 n + p

Microbial/176299 Agrobacterium tumefaciens str. C58 n + p

Microbial/177416 Francisella tularensis subsp. tularensis SCHU S4 n + p

Microbial/177439 Desulfotalea psychrophila LSv54 n + p

Microbial/178306 Pyrobaculum aerophilum str. IM2 n + p

Microbial/179237 Sinorhizobium meliloti phage PBC5 n + p

Microbial/180170 Infectious spleen and kidney necrosis virus n + p

Microbial/180454 Anopheles gambiae str. PEST n + p

Microbial/180586 Casphalia extranea densovirus n + p

Microbial/182082 Chlamydophila pneumoniae TW-183 n + p

Microbial/183190 Xylella fastidiosa Temecula1 n + p

Microbial/184922 Giardia lamblia ATCC 50803 n + p

Microbial/185431 Trypanosoma brucei TREU927 n + p

Microbial/186103 Streptococcus pyogenes MGAS8232 n + p

Microbial/186497 Pyrococcus furiosus DSM 3638 n + p

Microbial/187272 Alkalilimnicola ehrlichei MLHE-1 n + p

Microbial/187410 Yersinia pestis KIM n + p

Microbial/187420 Methanothermobacter thermautotrophicus str. Delta H n + p

Microbial/188350 Pseudomonas aeruginosa phage PaP3 n + p

Microbial/188937 Methanosarcina acetivorans C2A n + p

Microbial/189518 Leptospira interrogans serovar Lai str. 56601 n + p

Microbial/189836 Propionibacterium phage B5 n + p

Microbial/189918 Mycobacterium sp. KMS n + p

Microbial/190064 Fowl adenovirus D n + p

Microbial/190192 Methanopyrus kandleri AV19 n + p

Microbial/190304 Fusobacterium nucleatum subsp. nucleatum ATCC 25586 n + p

Microbial/190485 Xanthomonas campestris pv. campestris str. ATCC 33913 n + p

Microbial/190486 Xanthomonas axonopodis pv. citri str. 306 n + p

Microbial/190650 Caulobacter crescentus CB15 n + p

Microbial/191218 Bacillus anthracis str. A2012 n + p

Microbial/192222 Campylobacter jejuni subsp. jejuni NCTC 11168 n + p

Microbial/192584 Phthorimaea operculella granulovirus n + p

Microbial/192952 Methanosarcina mazei Go1 n + p

Microbial/193567 Streptococcus pyogenes SSI-1 n + p

Microbial/194439 Chlorobium tepidum TLS n + p

Microbial/194802 Vibriophage VpV262 n + p

Microbial/194966 Enterobacteria phage SP6 n + p

Microbial/195099 Campylobacter jejuni RM1221 n + p

Microbial/195102 Clostridium perfringens str. 13 n + p

Microbial/195103 Clostridium perfringens ATCC 13124 n + p

Microbial/196162 Nocardioides sp. JS614 n + p

Microbial/196164 Corynebacterium efficiens YS-314 n + p

Microbial/196600 Vibrio vulnificus YJ016 n + p

Microbial/196620 Staphylococcus aureus subsp. aureus MW2 n + p

Microbial/196627 Corynebacterium glutamicum ATCC 13032 n + p

Microbial/197221 Thermosynechococcus elongatus BP-1 n + p

Microbial/197783 Pseudomonas phage gh-1 n + p

Microbial/197911 Influenzavirus A n + p

Microbial/197912 Influenzavirus B n + p

Microbial/197913 Influenzavirus C n + p

Microbial/198094 Bacillus anthracis str. Ames n + p

Microbial/198214 Shigella flexneri 2a str. 301 n + p

Microbial/198215 Shigella flexneri 2a str. 2457T n + p

Microbial/198466 Streptococcus pyogenes MGAS315 n + p

Microbial/198804 Buchnera aphidicola str. Sg (Schizaphis graminum) n + p

Microbial/199310 Escherichia coli CFT073 n + p

Microbial/203119 Clostridium thermocellum ATCC 27405 n + p

Microbial/203120 Leuconostoc mesenteroides subsp. mesenteroides ATCC 8293 n + p

Microbial/203122 Saccharophagus degradans 2-40 n + p

Microbial/203123 Oenococcus oeni PSU-1 n + p

Microbial/203124 Trichodesmium erythraeum IMS101 n + p

Microbial/203267 Tropheryma whipplei str. Twist n + p

Microbial/203907 Candidatus Blochmannia floridanus n + p

Microbial/204669 Acidobacteria bacterium Ellin345 n + p

Microbial/204722 Brucella suis 1330 n + p

Microbial/205913 Bifidobacterium longum DJO10A n + p

Microbial/205914 Haemophilus somnus 129PT n + p

Microbial/205918 Pseudomonas syringae pv. syringae B728a n + p

Microbial/205919 Bacillus anthracis str. Kruger B n only

Microbial/205920 Ehrlichia chaffeensis str. Arkansas n + p

Microbial/205921 Streptococcus agalactiae A909 n + p

Microbial/205922 Pseudomonas fluorescens PfO-1 n + p

Microbial/206672 Bifidobacterium longum NCC2705 n + p

Microbial/207559 Desulfovibrio desulfuricans G20 n + p

Microbial/207597 Vibrio harveyi bacteriophage VHML n + p

Microbial/207949 Oceanobacter sp. RED65 n + p

Microbial/207954 Oceanospirillum sp. MED92 n + p

Microbial/208435 Streptococcus agalactiae 2603V/R n + p

Microbial/208491 Goose hemorrhagic polyomavirus n + p

Microbial/208963 Pseudomonas aeruginosa UCBPP-PA14 n + p

Microbial/208964 Pseudomonas aeruginosa PAO1 n + p

Microbial/209052 Burkholderia cepacia phage Bcep781 n + p

Microbial/209261 Salmonella enterica subsp. enterica serovar Typhi Ty2 n + p

Microbial/209882 Fusobacterium nucleatum subsp. vincentii ATCC 49256 n + p

Microbial/210007 Streptococcus mutans UA159 n + p

Microbial/211110 Streptococcus agalactiae NEM316 n + p

Microbial/211586 Shewanella oneidensis MR-1 n + p

Microbial/211787 Human papillomavirus type 92 n + p

Microbial/212035 Acanthamoeba polyphaga mimivirus n + p

Microbial/212042 Anaplasma phagocytophilum HZ n + p

Microbial/212045 Bacillus anthracis str. Western North America USA6153 n only

Microbial/212717 Clostridium tetani E88 n + p

Microbial/214092 Yersinia pestis CO92 n + p

Microbial/214684 Cryptococcus neoformans var. neoformans JEC21 n + p

Microbial/215158 Enterobacteria phage epsilon15 n + p

Microbial/216389 Dehalococcoides sp. BAV1 n + p

Microbial/216432 Croceibacter atlanticus HTCC2559 n + p

Microbial/216596 Rhizobium leguminosarum bv. viciae 3841 n + p

Microbial/216895 Vibrio vulnificus CMCP6 n + p

Microbial/218491 Erwinia carotovora subsp. atroseptica SCRI1043 n + p

Microbial/218496 Tropheryma whipplei TW08/27 n + p

Microbial/218497 Chlamydophila abortus S26/3 n + p

Microbial/220341 Salmonella enterica subsp. enterica serovar Typhi str. CT18 n + p

Microbial/220638 Blattella germanica densovirus n + p

Microbial/220664 Pseudomonas fluorescens Pf-5 n + p

Microbial/220668 Lactobacillus plantarum WCFS1 n + p

Microbial/221109 Oceanobacillus iheyensis HTE831 n + p

Microbial/221359 Synechococcus sp. RS9916 n + p

Microbial/221360 Synechococcus sp. RS9917 n + p

Microbial/221988 Mannheimia succiniciproducens MBEL55E n + p

Microbial/222523 Bacillus cereus ATCC 10987 n + p

Microbial/222645 Halovirus HF1 n + p

Microbial/222891 Neorickettsia sennetsu str. Miyayama n + p

Microbial/223283 Pseudomonas syringae pv. tomato str. DC3000 n + p

Microbial/223926 Vibrio parahaemolyticus RIMD 2210633 n + p

Microbial/224308 Bacillus subtilis subsp. subtilis str. 168 n + p

Microbial/224324 Aquifex aeolicus VF5 n + p

Microbial/224325 Archaeoglobus fulgidus DSM 4304 n + p

Microbial/224326 Borrelia burgdorferi B31 n + p

Microbial/224911 Bradyrhizobium japonicum USDA 110 n + p

Microbial/224914 Brucella melitensis 16M n + p

Microbial/224915 Buchnera aphidicola str. Bp (Baizongia pistaciae) n + p

Microbial/226125 Saccharomyces paradoxus NRRL Y-17217 n only

Microbial/226126 Saccharomyces mikatae IFO 1815 n only

Microbial/226127 Saccharomyces bayanus MCYC 623 n only

Microbial/226185 Enterococcus faecalis V583 n + p

Microbial/226186 Bacteroides thetaiotaomicron VPI-5482 n + p

Microbial/226230 Saccharomyces kudriavzevii IFO 1802 n only

Microbial/226231 Saccharomyces bayanus 623-6C n only

Microbial/226301 Saccharomyces castellii NRRL Y-12630 n only

Microbial/226302 Saccharomyces kluyveri NRRL Y-12651 n only

Microbial/226900 Bacillus cereus ATCC 14579 n + p

Microbial/227321 Aspergillus nidulans FGSC A4 n + p

Microbial/227377 Coxiella burnetii RSA 493 n + p

Microbial/227882 Streptomyces avermitilis MA-4680 n + p

Microbial/227941 Chlamydophila caviae GPIC n + p

Microbial/228399 Actinobacillus pleuropneumoniae serovar 1 str. 4074 n + p

Microbial/228400 Haemophilus somnus 2336 n + p

Microbial/228405 Hyphomonas neptunium ATCC 15444 n + p

Microbial/228410 Nitrosomonas europaea ATCC 19718 n + p

Microbial/228908 Nanoarchaeum equitans Kin4-M n + p

Microbial/229193 Yersinia pestis biovar Microtus str. 91001 n + p

Microbial/229533 Gibberella zeae PH-1 n + p

Microbial/232721 Acidovorax sp. JS42 n + p

Microbial/233150 Mycoplasma gallisepticum R n + p

Microbial/233412 Haemophilus ducreyi 35000HP n + p

Microbial/233413 Mycobacterium bovis AF2122/97 n + p

Microbial/234267 Solibacter usitatus Ellin6076 n + p

Microbial/234826 Anaplasma marginale str. St. Maries n + p

Microbial/235279 Helicobacter hepaticus ATCC 51449 n + p

Microbial/235443 Cryptococcus neoformans var. grubii H99 n only

Microbial/235909 Geobacillus kaustophilus HTA426 n + p

Microbial/237561 Candida albicans SC5314 n + p

Microbial/237631 Ustilago maydis 521 n + p

Microbial/237727 Erythrobacter sp. NAP1 n + p

Microbial/237895 Cryptosporidium hominis n + p

Microbial/238030 Pasteuria nishizawae str. North American n + p

Microbial/239364_16209 uncultured human fecal virus n only

Microbial/240176 Coprinopsis cinerea okayama7#130 n + p

Microbial/240292 Anabaena variabilis ATCC 29413 n + p

Microbial/242231 Neisseria gonorrhoeae FA 1090 n + p

Microbial/242507 Magnaporthe grisea 70-15 n only

Microbial/242527 Burkholderia cepacia phage Bcep22 n + p

Microbial/242619 Porphyromonas gingivalis W83 n + p

Microbial/242710 Tree shrew adenovirus n + p

Microbial/242861 Burkholderia cepacia phage BcepNazgul n + p

Microbial/243090 Rhodopirellula baltica SH 1 n + p

Microbial/243160 Burkholderia mallei ATCC 23344 n + p

Microbial/243161 Chlamydia muridarum Nigg n + p

Microbial/243164 Dehalococcoides ethenogenes 195 n + p

Microbial/243230 Deinococcus radiodurans R1 n + p

Microbial/243231 Geobacter sulfurreducens PCA n + p

Microbial/243232 Methanocaldococcus jannaschii DSM 2661 n + p

Microbial/243233 Methylococcus capsulatus str. Bath n + p

Microbial/243265 Photorhabdus luminescens subsp. laumondii TTO1 n + p

Microbial/243273 Mycoplasma genitalium G37 n + p

Microbial/243274 Thermotoga maritima MSB8 n + p

Microbial/243275 Treponema denticola ATCC 35405 n + p

Microbial/243276 Treponema pallidum subsp. pallidum str. Nichols n + p

Microbial/243277 Vibrio cholerae O1 biovar eltor str. N16961 n + p

Microbial/243365 Chromobacterium violaceum ATCC 12472 n + p

Microbial/244310 Burkholderia cenocepacia phage Bcep1 n + p

Microbial/246194 Carboxydothermus hydrogenoformans Z-2901 n + p

Microbial/246197 Myxococcus xanthus DK 1622 n + p

Microbial/246200 Silicibacter pomeroyi DSS-3 n + p

Microbial/246409 Rhizopus oryzae RA 99-880 n only

Microbial/246410 Coccidioides immitis RS n only

Microbial/247156 Nocardia farcinica IFM 10152 n + p

Microbial/247635 marine gamma proteobacterium HTCC2207 n + p

Microbial/249151 Neodiprion lecontii NPV n + p

Microbial/251221 Gloeobacter violaceus PCC 7421 n + p

Microbial/252305 Oceanicola batsensis HTCC2597 n + p

Microbial/252602 Snake parvovirus 1 n + p

Microbial/254945 Ehrlichia ruminantium str. Welgevonden n + p

Microbial/255470 Dehalococcoides sp. CBDB1 n + p

Microbial/256729 Lymphocystis disease virus - isolate China n + p

Microbial/257309 Corynebacterium diphtheriae NCTC 13129 n + p

Microbial/257310 Bordetella bronchiseptica RB50 n + p

Microbial/257311 Bordetella parapertussis 12822 n + p

Microbial/257313 Bordetella pertussis Tohama I n + p

Microbial/257314 Lactobacillus johnsonii NCC 533 n + p

Microbial/257363 Rickettsia typhi str. Wilmington n + p

Microbial/258594 Rhodopseudomonas palustris CGA009 n + p

Microbial/259536 Psychrobacter arcticus 273-4 n + p

Microbial/259564 Methanococcoides burtonii DSM 6242 n + p

Microbial/259901 Bacteriophage 77 n + p

Microbial/260372 Vibriophage VP2 n + p

Microbial/260373 Burkholderia cepacia phage Bcep43 n + p

Microbial/260799 Bacillus anthracis str. Sterne n + p

Microbial/260827 Vibrio phage VP5 n + p

Microbial/260908 Tomato mosaic leaf curl virus n + p

Microbial/260909 Tomato yellow margin leaf curl virus n + p

Microbial/261591 Bacillus anthracis str. Vollum n only

Microbial/261594 Bacillus anthracis str. 'Ames Ancestor' n + p

Microbial/261939 Ostreid herpesvirus 1 n + p

Microbial/262316 Mycobacterium avium subsp. paratuberculosis K-10 n + p

Microbial/262489 delta proteobacterium MLMS-1 n + p

Microbial/262543 Exiguobacterium sibiricum 255-15 n + p

Microbial/262698 Brucella abortus biovar 1 str. 9-941 n + p

Microbial/262719 Mycoplasma hyopneumoniae J n + p

Microbial/262722 Mycoplasma hyopneumoniae 7448 n + p

Microbial/262723 Mycoplasma synoviae 53 n + p

Microbial/262724 Thermus thermophilus HB27 n + p

Microbial/262727 Haemophilus influenzae R2846 n + p

Microbial/262728 Haemophilus influenzae R2866 n + p

Microbial/262768 Onion yellows phytoplasma OY-M n + p

Microbial/262968 Singapore grouper iridovirus n + p

Microbial/262981 Kluyveromyces waltii NCYC 2644 n only

Microbial/263820 Picrophilus torridus DSM 9790 n + p

Microbial/264198 Ralstonia eutropha JMP134 n + p

Microbial/264199 Streptococcus thermophilus LMG 18311 n + p

Microbial/264201 Candidatus Protochlamydia amoebophila UWE25 n + p

Microbial/264202 Chlamydophila felis Fe/C-56 n + p

Microbial/264203 Zymomonas mobilis subsp. mobilis ZM4 n + p

Microbial/264462 Bdellovibrio bacteriovorus HD100 n + p

Microbial/264729 Burkholderia cenocepacia phage BcepMu n + p

Microbial/264730 Pseudomonas syringae pv. phaseolicola 1448A n + p

Microbial/264732 Moorella thermoacetica ATCC 39073 n + p

Microbial/265072 Methylobacillus flagellatus KT n + p

Microbial/265311 Mesoplasma florum L1 n + p

Microbial/265669 Listeria monocytogenes str. 4b F2365 n + p

Microbial/266117 Rubrobacter xylanophilus DSM 9941 n + p

Microbial/266264 Ralstonia metallidurans CH34 n + p

Microbial/266265 Burkholderia xenovorans LB400 n + p

Microbial/266779 Mesorhizobium sp. BNC1 n + p

Microbial/266834 Sinorhizobium meliloti 1021 n + p

Microbial/266835 Mesorhizobium loti MAFF303099 n + p

Microbial/266940 Kineococcus radiotolerans SRS30216 n + p

Microbial/267377 Methanococcus maripaludis S2 n + p

Microbial/267409 Listeria monocytogenes str. 1/2a F6854 n + p

Microbial/267410 Listeria monocytogenes str. 4b H7858 n + p

Microbial/267608 Ralstonia solanacearum GMI1000 n + p

Microbial/267671 Leptospira interrogans serovar Copenhageni str. Fiocruz L1-130 n + p

Microbial/267747 Propionibacterium acnes KPA171202 n + p

Microbial/267748 Mycoplasma mobile 163K n + p

Microbial/269084 Synechococcus elongatus PCC 6301 n + p

Microbial/269482 Burkholderia vietnamiensis G4 n + p

Microbial/269483 Burkholderia sp. 383 n + p

Microbial/269484 Ehrlichia canis str. Jake n + p

Microbial/269796 Rhodospirillum rubrum ATCC 11170 n + p

Microbial/269797 Methanosarcina barkeri str. Fusaro n + p

Microbial/269798 Cytophaga hutchinsonii ATCC 33406 n + p

Microbial/269799 Geobacter metallireducens GS-15 n + p

Microbial/269800 Thermobifida fusca YX n + p

Microbial/269801 Bacillus cereus G9241 n + p

Microbial/271848 Burkholderia thailandensis E264 n + p

Microbial/272557 Aeropyrum pernix K1 n + p

Microbial/272558 Bacillus halodurans C-125 n + p

Microbial/272559 Bacteroides fragilis NCTC 9343 n + p

Microbial/272560 Burkholderia pseudomallei K96243 n + p

Microbial/272561 Chlamydia trachomatis D/UW-3/CX n + p

Microbial/272562 Clostridium acetobutylicum ATCC 824 n + p

Microbial/272564 Desulfitobacterium hafniense DCB-2 n + p

Microbial/272569 Haloarcula marismortui ATCC 43049 n + p

Microbial/272621 Lactobacillus acidophilus NCFM n + p

Microbial/272622 Lactococcus lactis subsp. cremoris SK11 n + p

Microbial/272623 Lactococcus lactis subsp. lactis Il1403 n + p

Microbial/272624 Legionella pneumophila subsp. pneumophila str. Philadelphia 1 n + p

Microbial/272626 Listeria innocua Clip11262 n + p

Microbial/272627 Magnetospirillum magnetotacticum MS-1 n + p

Microbial/272629 Mannheimia haemolytica PHL213 n only

Microbial/272631 Mycobacterium leprae TN n + p

Microbial/272632 Mycoplasma mycoides subsp. mycoides SC str. PG1 n + p

Microbial/272633 Mycoplasma penetrans HF-2 n + p

Microbial/272634 Mycoplasma pneumoniae M129 n + p

Microbial/272635 Mycoplasma pulmonis UAB CTIP n + p

Microbial/272843 Pasteurella multocida subsp. multocida str. Pm70 n + p

Microbial/272844 Pyrococcus abyssi GE5 n + p

Microbial/272943 Rhodobacter sphaeroides 2.4.1 n + p

Microbial/272944 Rickettsia conorii str. Malish 7 n + p

Microbial/272947 Rickettsia prowazekii str. Madrid E n + p

Microbial/272951 Rickettsia sibirica 246 n + p

Microbial/273036 Staphylococcus aureus RF122 n + p

Microbial/273057 Sulfolobus solfataricus P2 n + p

Microbial/273063 Sulfolobus tokodaii str. 7 n + p

Microbial/273068 Thermoanaerobacter tengcongensis MB4 n + p

Microbial/273075 Thermoplasma acidophilum DSM 1728 n + p

Microbial/273116 Thermoplasma volcanium GSS1 n + p

Microbial/273119 Ureaplasma parvum serovar 3 str. ATCC 700970 n + p

Microbial/273121 Wolinella succinogenes DSM 1740 n + p

Microbial/273123 Yersinia pseudotuberculosis IP 32953 n + p

Microbial/273507 Phanerochaete chrysosporium RP-78 n only

Microbial/2762 Cyanophora paradoxa n + p

Microbial/278197 Pediococcus pentosaceus ATCC 25745 n + p

Microbial/279010 Bacillus licheniformis ATCC 14580 n + p

Microbial/279238 Novosphingobium aromaticivorans DSM 12444 n + p

Microbial/279263 Rubrivivax gelatinosus PM1 n + p

Microbial/279280 Burkholderia cepacia complex phage BcepC6B n + p

Microbial/279303 Actinoplanes phage phiAsp2 n + p

Microbial/279530 Burkholderia cenocepacia phage BcepB1A n only

Microbial/279808 Staphylococcus haemolyticus JCSC1435 n + p

Microbial/280354 Bacillus anthracis str. CNEVA-9066 n only

Microbial/280355 Bacillus anthracis str. A1055 n only

Microbial/280477 Bacillus anthracis str. Australia 94 n only

Microbial/281090 Leifsonia xyli subsp. xyli str. CTCB07 n + p

Microbial/281309 Bacillus thuringiensis serovar konkukian str. 97-27 n + p

Microbial/281310 Haemophilus influenzae 86-028NP n + p

Microbial/281689 Desulfuromonas acetoxidans DSM 684 n + p

Microbial/282458 Staphylococcus aureus subsp. aureus MRSA252 n + p

Microbial/282459 Staphylococcus aureus subsp. aureus MSSA476 n + p

Microbial/28304 Murid herpesvirus 2 n + p

Microbial/283165 Bartonella quintana str. Toulouse n + p

Microbial/283166 Bartonella henselae str. Houston-1 n + p

Microbial/28321 Amsacta moorei entomopoxvirus 'L' n + p

Microbial/283643 Cryptococcus neoformans var. neoformans B-3501A n + p

Microbial/283942 Idiomarina loihiensis L2TR n + p

Microbial/284590 Kluyveromyces lactis NRRL Y-1140 n + p

Microbial/284591 Yarrowia lipolytica CLIB122 n + p

Microbial/284592 Debaryomyces hansenii CBS767 n + p

Microbial/284593 Candida glabrata CBS 138 n + p

Microbial/284812 Schizosaccharomyces pombe 972h- n + p

Microbial/284813 Encephalitozoon cuniculi GB-M1 n + p

Microbial/285006 Saccharomyces cerevisiae RM11-1a n only

Microbial/285217 Aspergillus terreus ATCC 20542 n only

Microbial/286604 Streptococcus suis 89/1591 n + p

Microbial/286636 Streptococcus pyogenes MGAS10394 n + p

Microbial/288000 Bradyrhizobium sp. BTAi1 n + p

Microbial/288681 Bacillus cereus E33L n + p

Microbial/289380 Clostridium perfringens SM101 n + p

Microbial/290315 Chlorobium limicola DSM 245 n + p

Microbial/290317 Chlorobium phaeobacteroides DSM 266 n + p

Microbial/290318 Prosthecochloris vibrioformis DSM 265 n + p

Microbial/290397 Anaeromyxobacter dehalogenans 2CP-C n + p

Microbial/290398 Chromohalobacter salexigens DSM 3043 n + p

Microbial/290399 Arthrobacter sp. FB24 n + p

Microbial/290400 Jannaschia sp. CCS1 n + p

Microbial/290402 Clostridium beijerincki NCIMB 8052 n + p

Microbial/290434 Borrelia garinii PBi n + p

Microbial/290512 Prosthecochloris aestuarii DSM 271 n + p

Microbial/290633 Gluconobacter oxydans 621H n + p

Microbial/291272 Candidatus Blochmannia pennsylvanicus str. BPEN n + p

Microbial/291331 Xanthomonas oryzae pv. oryzae KACC10331 n + p

Microbial/292414 Silicibacter sp. TM1040 n + p

Microbial/292415 Thiobacillus denitrificans ATCC 25259 n + p

Microbial/292459 Symbiobacterium thermophilum IAM 14863 n + p

Microbial/29250 Heliothis zea virus 1 n + p

Microbial/292805 Wolbachia endosymbiont strain TRS of Brugia malayi n + p

Microbial/293091 Haloquadratum walsbyi n + p

Microbial/293613 Rickettsia canadensis str. McKiel n + p

Microbial/293614 Rickettsia akari str. Hartford n + p

Microbial/293653 Streptococcus pyogenes MGAS5005 n + p

Microbial/293826 Alkaliphilus metalliredigenes QYMF n + p

Microbial/294381 Entamoeba histolytica HM-1:IMSS n + p

Microbial/294382 Bacillus clarkii bacteriophage BCJA1c n + p

Microbial/294746 Pichia guilliermondii ATCC 6260 n only

Microbial/294747 Candida tropicalis MYA-3404 n only

Microbial/294748 Candida albicans WO-1 n only

Microbial/294750 Cryptococcus neoformans R265 n only

Microbial/294934 Streptococcus pyogenes M49 591 n + p

Microbial/295319 Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150 n + p

Microbial/295358 Mycoplasma hyopneumoniae 232 n + p

Microbial/295405 Bacteroides fragilis YCH46 n + p

Microbial/296543 Thalassiosira pseudonana CCMP1335 n only

Microbial/296591 Polaromonas sp. JS666 n + p

Microbial/297245 Legionella pneumophila str. Lens n + p

Microbial/297246 Legionella pneumophila str. Paris n + p

Microbial/298331 Frog adenovirus n + p

Microbial/298334 Simian adenovirus A n + p

Microbial/298386 Photobacterium profundum SS9 n + p

Microbial/298653 Frankia sp. EAN1pec n + p

Microbial/299033 Lactobacillus reuteri JCM 1112 n + p

Microbial/299768 Streptococcus thermophilus CNRZ1066 n + p

Microbial/300267 Shigella dysenteriae Sd197 n + p

Microbial/300268 Shigella boydii Sb227 n + p

Microbial/300269 Shigella sonnei Ss046 n + p

Microbial/300852 Thermus thermophilus HB8 n + p

Microbial/302409 Ehrlichia ruminantium str. Gardel n + p

Microbial/30611 Otolemur garnettii n only

Microbial/306254 Campylobacter coli RM2228 n + p

Microbial/306263 Campylobacter lari RM2100 n + p

Microbial/306264 Campylobacter upsaliensis RM3195 n + p

Microbial/306537 Corynebacterium jeikeium K411 n + p

Microbial/306901 Chaetomium globosum CBS 148.51 n + p

Microbial/306902 Clavispora lusitaniae ATCC 42720 n only

Microbial/307502 Wolbachia endosymbiont of Drosophila ananassae n + p

Microbial/307796 Saccharomyces cerevisiae YJM789 n only

Microbial/309807 Salinibacter ruber DSM 13855 n + p

Microbial/31033 Takifugu rubripes n only

Microbial/312017 Tetrahymena thermophila SB210 n only

Microbial/312153 Polynucleobacter sp. QLW-P1DMWA-1 n + p

Microbial/312284 marine actinobacterium PHSC20C1 n + p

Microbial/312309 Vibrio fischeri ES114 n + p

Microbial/31234 Caenorhabditis remanei n only

Microbial/313589 Janibacter sp. HTCC2649 n + p

Microbial/313590 Cellulophaga sp. MED134 n + p

Microbial/313593 313593 n + p

Microbial/313594 Polaribacter irgensii 23-P n + p

Microbial/313595 Psychroflexus torquis ATCC 700755 n + p

Microbial/313596 Robiginitalea biformata HTCC2501 n + p

Microbial/313598 Tenacibaculum sp. MED152 n + p

Microbial/313603 Flavobacteriales bacterium HTCC2170 n + p

Microbial/313625 Synechococcus sp. BL107 n + p

Microbial/313627 Bacillus sp. NRRL B-14911 n + p

Microbial/314225 Erythrobacter litoralis HTCC2594 n + p

Microbial/314230 Blastopirellula marina DSM 3645 n + p

Microbial/314231 Fulvimarina pelagi HTCC2506 n + p

Microbial/314232 Loktanella vestfoldensis SKA53 n + p

Microbial/314253 Nitrobacter sp. Nb-311A n + p

Microbial/314254 Oceanicaulis alexandrii HTCC2633 n + p

Microbial/314256 Oceanicola granulosus HTCC2516 n + p

Microbial/314260 Parvularcula bermudensis HTCC2503 n + p

Microbial/314261 Candidatus Pelagibacter ubique HTCC1002 n + p

Microbial/314262 Roseobacter sp. MED193 n + p

Microbial/314264 Roseovarius sp. 217 n + p

Microbial/314265 Roseovarius sp. HTCC2601 n + p

Microbial/314266 Sphingomonas sp. SKA58 n + p

Microbial/314267 Sulfitobacter sp. NAS-14.1 n + p

Microbial/314269 Aurantimonas sp. SI85-9A1 n + p

Microbial/314271 Rhodobacterales bacterium HTCC2654 n + p

Microbial/314275 Alteromonas macleodii 'Deep ecotype' n + p

Microbial/314276 Idiomarina baltica OS145 n + p

Microbial/314277 Marinomonas sp. MED121 n + p

Microbial/314278 Nitrococcus mobilis Nb-231 n + p

Microbial/314280 Photobacterium profundum 3TCK n + p

Microbial/314282 Psychromonas sp. CNPT3 n + p

Microbial/314283 Reinekea sp. MED297 n + p

Microbial/314285 Congregibacter litoralis KT71 n + p

Microbial/314288 Vibrio alginolyticus 12G01 n + p

Microbial/314290 Vibrio sp. MED222 n + p

Microbial/314291 Vibrio splendidus 12B01 n + p

Microbial/314292 Vibrio angustum S14 n + p

Microbial/314315 Lactobacillus sakei subsp. sakei 23K n + p

Microbial/314345 Mariprofundus ferrooxydans PV-1 n + p

Microbial/314565 Xanthomonas campestris pv. campestris str. 8004 n + p

Microbial/315277 Chlamydia trachomatis A/HAR-13 n + p

Microbial/31532 Lactococcus phage sk1 n + p

Microbial/31535 Pseudomonas phage D3 n + p

Microbial/315456 Rickettsia felis URRWXCal2 n + p

Microbial/315730 Bacillus weihenstephanensis KBAB4 n + p

Microbial/315749 Bacillus cereus subsp. cytotoxis NVH 391-98 n + p

Microbial/316055 Rhodopseudomonas palustris BisA53 n + p

Microbial/316056 Rhodopseudomonas palustris BisB18 n + p

Microbial/316057 Rhodopseudomonas palustris BisB5 n + p

Microbial/316058 Rhodopseudomonas palustris HaA2 n + p

Microbial/316067 Geobacter sp. FRC-32 n + p

Microbial/316273 Xanthomonas campestris pv. vesicatoria str. 85-10 n + p

Microbial/316274 Herpetosiphon aurantiacus ATCC 23779 n + p

Microbial/316279 Synechococcus sp. CC9902 n + p

Microbial/316407 Escherichia coli W3110 n + p

Microbial/317025 Thiomicrospira crunogena XCL-2 n + p

Microbial/317655 Sphingopyxis alaskensis RB2256 n + p

Microbial/318161 Shewanella denitrificans OS217 n + p

Microbial/318167 Shewanella frigidimarina NCIMB 400 n + p

Microbial/318586 Paracoccus denitrificans PD1222 n + p

Microbial/319224 Shewanella putrefaciens CN-32 n + p

Microbial/319225 Pelodictyon luteolum DSM 273 n + p

Microbial/319701 Streptococcus pyogenes MGAS6180 n + p

Microbial/319795 Deinococcus geothermalis DSM 11300 n + p

Microbial/320371 Burkholderia pseudomallei 1710a n + p

Microbial/320372 Burkholderia pseudomallei 1710b n + p

Microbial/320373 Burkholderia pseudomallei 668 n + p

Microbial/320374