Related genomes of genome CLAMS based on shared OMA groups

How does the search work?

Input a query in the search field. Everytime you press Space or Enter after a word, a token will be created. The token is composed of a prefix describing how the query should be treated and the actual query itself.

What are the different types of tokens?

Each token represents either a Gene, HOG, OMA group, or Taxon. Prefixes are used to specify which category to associate with the query term.

Category	Prefixes
Genes	id, go, ec, description, domain, sequence
HOGs	hog, sequence
OMA Groups	omagroup, fingerprint, sequence
Taxon	species, taxid, taxon

For example, the token [go:4225] will search for genes in the OMA database annotated with the GO:0004225 gene ontology term.
How to search for a multi-word query?

If your query term is composed of multiple words (e.g homo sapiens), use " " to encapsulate it.

How many tokens can I have?

There is no limit on the number of tokens. It is not possible to enter multiple tokens of different categories, except taxon, which can be combined with other categories. For example, you can search for 'hog:60627 species:HUMAN' to return human genes found in HOG:606207.

How to edit/delete a token?

To edit a query, click on it to modify the input field. To edit a prefix, click on the dropdown icon to select another one. To remove a token, click on the x to delete it.

Autosuggest

Typing a query without hitting enter or space will prompt an autosuggestion for the identifier after a few seconds.

Search

How does the search work?

Input a query in the search field. Everytime you press Space or Enter after a word, a token will be created. The token is composed of a prefix describing how the query should be treated and the actual query itself.

What are the different types of tokens?

Each token represents either a Gene, HOG, OMA group, or Taxon. Prefixes are used to specify which category to associate with the query term.

Category	Prefixes
Genes	id, go, ec, description, domain, sequence
HOGs	hog, sequence
OMA Groups	omagroup, fingerprint, sequence
Taxon	species, taxid, taxon

For example, the token [go:4225] will search for genes in the OMA database annotated with the GO:0004225 gene ontology term.
How to search for a multi-word query?

If your query term is composed of multiple words (e.g homo sapiens), use " " to encapsulate it.

How many tokens can I have?

There is no limit on the number of tokens. It is not possible to enter multiple tokens of different categories, except taxon, which can be combined with other categories. For example, you can search for 'hog:60627 species:HUMAN' to return human genes found in HOG:606207.

How to edit/delete a token?

To edit a query, click on it to modify the input field. To edit a prefix, click on the dropdown icon to select another one. To remove a token, click on the x to delete it.

Autosuggest

Typing a query without hitting enter or space will prompt an autosuggestion for the identifier after a few seconds.

CLAMS - Clavibacter michiganensis subsp. sepedonicus (strain ATCC 33113 / DSM 20744 / JCM 9667 / LMG 2889 / C-1)

Proteome version: 29-APR-2008 (Rel. 90, Last updated, Version 1) with 3166 proteins.

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Genome information
Chromosome viewer
List genes
Related Species

Based on number of:

Shared OMA groups

Shared HOGs
Synteny

Species with most common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	CLAM3	Clavibacter michiganensis subsp. michiganensis (strain NCPPB 382)	2460
2	MICTS	Microbacterium testaceum (strain StLB037)	1372
3	ARTS2	Arthrobacter sp. (strain FB24)	1296
4	PAEAT	Paenarthrobacter aurescens (strain TC1)	1270
5	PSECP	Pseudarthrobacter chlorophenolicus (strain ATCC 700700 / DSM 12829 / CIP 107037 / JCM 12360 / KCTC 9906 / NCIMB 13794 / A6)	1255
6	PSEPM	Pseudarthrobacter phenanthrenivorans (strain DSM 18606 / JCM 16027 / LMG 23796 / Sphe3)	1239
7	KINRD	Kineococcus radiotolerans (strain ATCC BAA-149 / DSM 14245 / SRS30216)	1189
8	SANKS	Sanguibacter keddieii (strain ATCC 51767 / DSM 10542 / NCFB 3025 / ST-74)	1183
9	AMYMS	Amycolatopsis mediterranei (strain S699)	1169
10	CELFA	Cellulomonas fimi (strain ATCC 484 / DSM 20113 / JCM 1341 / NBRC 15513 / NCIMB 8980 / NCTC 7547)	1156

Species with least common OMA groups

Nb.	OMA Group	Scientific Name	Nb. orthologous group
1	ENTBH	Enterocytozoon bieneusi (strain H348)	20
2	TRAHO	Trachipleistophora hominis	23
3	NANEQ	Nanoarchaeum equitans (strain Kin4-M)	24
4	VITCO	Vittaforma corneae (strain ATCC 50505)	24
5	UC149	Candidatus Huberarchaeum crystalense CG_4_9_14_0_8_um_filter_31_21	24
6	TRYCI	Trypanosoma congolense (strain IL3000)	24
7	NEMS1	Nematocida sp. 1 (strain ERTm2 / ATCC PRA-371)	26
8	VAVCU	Vavraia culicis (isolate floridensis)	27
9	EDHAE	Edhazardia aedis (strain USNM 41457)	28
10	MONPE	Moniliophthora perniciosa (strain FA553 / isolate CP02)	29