fnec Gene Table Build 14_03_11 [A quick tutorial]

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
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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
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1) BL
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6) DJ-2
7) D12
8) ATCC51357
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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-cluster000004 COG0601 [EP]peptide ABC transporter permease915                 
2p-cluster000005 COG0747 [E]diguanylate phosphodiesterase1488                 
3p-cluster000006 Uncategoriziedhypothetical protein1401        *        
4p-cluster000008 COG1073 [R]lysophospholipase864  *              
5p-cluster000010 Uncategoriziedhypothetical protein222                 
6p-cluster000011 COG0736 [I]4-phosphopantetheinyl transferase345                 
7p-cluster000012 COG0084 [L]hydrolase TatD759                 
8p-cluster000013 COG1281 [O]molecular chaperone Hsp33861                 
9p-cluster000014 COG1555 [L]competence protein522                 
10p-cluster000015 COG0635 [H]coproporphyrinogen III oxidase1383                 
11p-cluster000017 COG0606 [O]magnesium transporter1503                 
12p-cluster000018 COG1971 [S]hypothetical protein558                 
13p-cluster000019 COG0781 [K]nitrogen utilization protein B417                 
14p-cluster000020 Uncategoriziedmembrane protein225                 
15p-cluster000021 Uncategoriziedhypothetical protein537                 
16p-cluster000022 COG1302 [S]alkaline-shock protein363                 
17p-cluster000023 COG0439 [I]acetyl-CoA carboxylase biotin carbo1344                 
18p-cluster000026 Uncategoriziedhypothetical protein1761        *        
19p-cluster000027 COG0553 [KL]helicase SNF3405    *            
20p-cluster000028 COG0614 [P]hemin receptor876                 
21p-cluster000031 COG1120 [PH]heme ABC transporter ATP-binding pr801        *        
22p-cluster000032 COG0635 [H]oxygen-independent coproporphyrinog1227                 
23p-cluster000033 COG3775 [G]PTS galactitol transporter subunit 1260            *    
24p-cluster000034 COG3414 [G]PTS lactose transporter subunit IIB393                 
25p-cluster000035 COG1762 [GT]PTS sugar transporter subunit IIA438                 
26p-cluster000037 COG1762 [GT]phosphoenolpyruvate-dependent sugar2061  *     *   *    
27p-cluster000038 COG3629 [T]hypothetical protein1152  *         *    
28p-cluster000040 COG1574 [R]exoenzyme regulatory protein aepA p1629  *         *    
29p-cluster000041 COG1757 [C]sodium:proton antiporter1428  *              
30p-cluster000042 COG0441 [J]threonyl-tRNA synthetase1914                 
31p-cluster000043 Uncategoriziedhypothetical protein3633      *          
32p-cluster000044 COG0526 [OC]thioredoxin321* * * *       * *
33p-cluster000045 COG1214 [O]O-sialoglycoprotein endopeptidase669                 
34p-cluster000046 COG0802 [R]ATP/GTP hydrolase468                 
35p-cluster000048 COG0494 [LR]phosphohydrolase597  *       *   *  
36p-cluster000049 Uncategoriziedhypothetical protein120*         *      
37p-cluster000050 COG1902 [C]NADH oxidase957*                
38p-cluster000052 Uncategoriziedhypothetical protein216                 
39p-cluster000053 COG4394 [S]hypothetical protein1029                 
40p-cluster000054 COG0231 [J]elongation factor P564                 
41p-cluster000055 COG0326 [O]heat shock protein 901818              * *
42p-cluster000056 Uncategoriziedantitoxin231    *            
43p-cluster000057 COG2026 [JD]pirin270  * *   *        
44p-cluster000058 COG1362 [E]aminopeptidase1389  * *            
45p-cluster000059 COG1609 [K]transcriptional regulator1035    *            
46p-cluster000063 COG1082 [G]endonuclease786            *    
47p-cluster000064 COG1597 [IR]lipid kinase882            *    
48p-cluster000069 COG4750 [M]cholinephosphate cytidylyltransfera870                 
49p-cluster000072 COG4938 [S]ATPase AAA1407      *     *    
50p-cluster000073 Uncategoriziedhypothetical protein699      *          

Please send any comment/suggestion to kitticho@uw.edu
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Gene Completeness


: Similar sequence present
: Not present

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