fnec Gene Table Build 14_03_11 [A quick tutorial]

Citation
Kittichotirat W, Bumgarner RE, Asikainen S, Chen C, 2011
Identification of the Pangenome and Its Components in 14 Distinct Aggregatibacter actinomycetemcomitans Strains by Comparative Genomic Analysis
PLoS ONE 6(7): e22420. doi:10.1371/journal.pone.0022420

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1) BL
2) DJ-1
3) BFTR-1
4) DAB
5) BFTR-2
6) DJ-2
7) D12
8) ATCC51357
9) Fnf1007
Show genes only present in
1) BL
2) DJ-1
3) BFTR-1
4) DAB
5) BFTR-2
6) DJ-2
7) D12
8) ATCC51357
9) Fnf1007
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Show genes not present in
1) BL
2) DJ-1
3) BFTR-1
4) DAB
5) BFTR-2
6) DJ-2
7) D12
8) ATCC51357
9) Fnf1007


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# Cluster ID COG Function Annotation Expected gene Length (bp)

Fusobacterium necrophorum BL

Fusobacterium necrophorum DJ-1

Fusobacterium necrophorum BFTR-1

Fusobacterium necrophorum DAB

Fusobacterium necrophorum BFTR-2

Fusobacterium necrophorum DJ-2

Fusobacterium necrophorum D12

Fusobacterium necrophorum subsp. funduliforme ATCC

Fusobacterium necrophorum subsp. funduliforme Fnf

1p-cluster017827 Uncategoriziedhypothetical protein567                 
2p-cluster000530 COG0327 [S]transcriptional regulator777    *            
3p-cluster000531 COG0568 [K]hypothetical protein867    *            
4p-cluster000532 COG0568 [K]RNA polymerase sigma factor rpoD1311            *    
5p-cluster000533 COG0358 [L]DNA primase1827                 
6p-cluster000534 COG0760 [O]hypothetical protein1650                 
7p-cluster000230 COG2204 [T]transcriptional regulator1716    *   *   *   *
8p-cluster000536 COG0750 [M]zinc metalloprotease1002                 
9p-cluster000537 COG0125 [F]thymidylate kinase669                 
10p-cluster000538 COG0743 [I]1-deoxy-D-xylulose 5-phosphate redu1155                 
11p-cluster000539 COG0575 [I]phosphatidate cytidylyltransferase825                 
12p-cluster000540 COG0020 [I]UDP pyrophosphate synthase693  *       *      
13p-cluster000689 COG3797 [S]hypothetical protein528                 
14p-cluster019136 COG1309 [K]transcriptional regulator, TetR fam633                 
15p-cluster000687 COG0534 [V]multidrug transporter MatE1350            *    
16p-cluster005545 Uncategoriziedhypothetical protein231                 
17p-cluster000686 Uncategoriziedhypothetical protein96                 
18p-cluster005547 Uncategoriziedhypothetical protein12519*     * * *      
19p-cluster005547 Uncategoriziedhypothetical protein12519* *   * * *      
20p-cluster008206 Uncategoriziedhypothetical protein540*     * * *      
21p-cluster000352 Uncategoriziedmembrane protein229*   * * * *      
22rrna-cluster000036 Uncategorizied23S ribosomal RNA2913* * * * * *   * *
23p-cluster004793 COG2826 [L]integrase1029* * * * * *     *
24p-cluster011513 Uncategoriziedhypothetical protein297        *        
25p-cluster000958 COG0500 [QR]methyltransferase1548  * *   * *      
26p-cluster000690 COG3328 [L]transposase Mu1242*   * * * *      
27p-cluster002322 Uncategoriziedhypothetical protein189                 
28p-cluster002323 Uncategoriziedhypothetical protein120                 
29p-cluster002324 COG0151 [F]hypothetical protein186                 
30p-cluster001831 Uncategoriziedhypothetical protein210                 
31p-cluster002326 Uncategoriziedhypothetical protein609                 
32p-cluster001829 COG0803 [P]ABC transporter substrate-binding p912                 
33p-cluster000031 COG1120 [PH]heme ABC transporter ATP-binding pr801        *        
34p-cluster002329 COG1108 [P]zinc ABC transporter permease900*                
35p-cluster000931 COG0803 [P]iron/zinc/copper-binding protein879                 
36p-cluster015387 Uncategoriziedhypothetical protein453                 
37p-cluster000929 COG5266 [P]nickel transporter798        *        
38p-cluster000928 Uncategoriziedhypothetical protein924        *        
39p-cluster000927 Uncategoriziedhypothetical protein546  *     *        
40p-cluster000779 Uncategoriziedhypothetical protein180  *              
41p-cluster002336 Uncategoriziedhypothetical protein558                 
42p-cluster002337 Uncategoriziedmembrane protein591                 
43p-cluster002338 UncategoriziedDNA repair protein2511                 
44rrna-cluster000036 Uncategorizied23S ribosomal RNA2913* * * * * *   * *
45rrna-cluster000023 Uncategorizied23S ribosomal RNA112          *      
46rrna-cluster000007 Uncategorizied5S ribosomal RNA117* * *   * * * * *
47p-cluster001609 COG0826 [O]protease2169  *              
48p-cluster001608 COG1267 [I]phosphatidylglycerophosphatase525                 
49p-cluster001607 COG1546 [R]competence damage-inducible protein1209                 
50p-cluster000702 COG1396 [K]MerR family transcriptional regulat555                 

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Gene Completeness

>=100%
=70%
<70%

: Similar sequence present
: Not present

* : Within 300 bp from ends
F : Possible frameshift
I : Island genes