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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1) BL
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4) DAB
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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-cluster005547 Uncategoriziedhypothetical protein12519* *   * * *      
2p-cluster006979 Uncategoriziedmembrane protein11328* * * * * *      
3p-cluster006198 Uncategoriziedautotransporter subunit beta11217* *   * * *      
4p-cluster016027 COG3210 [U]filamentous hemeagglutinin family d10896                *
5p-cluster008900 Uncategoriziedhypothetical protein10339* * * * * *      
6p-cluster016899 Uncategoriziedhypothetical protein9732* *              
7p-cluster000197 Uncategoriziedhypothetical protein8604* * * * * *      
8p-cluster006348 Uncategoriziedmembrane protein8019* * * * * *      
9p-cluster008669 COG0827 [L]helicase7608  * * *   *      
10p-cluster014326 COG3210 [U]hemolysin7215* * * *   *      
11p-cluster017799 COG5295 [UW]YadA-like C-terminal domain protein6495                 
12p-cluster006317 Uncategoriziedhypothetical protein6199*   * *          
13p-cluster012084 COG3210 [U]hemolysin5842  * * * * *      
14p-cluster008073 Uncategoriziedhypothetical protein5562* * * *   *      
15p-cluster011209 COG4983 [S]hypothetical protein5547                 
16p-cluster019003 Uncategoriziedhypothetical protein4950                 
17p-cluster016175 COG5295 [UW]hemagglutinin4881                *
18p-cluster016039 COG5295 [UW]Hep/Hag repeat protein4718            * * *
19p-cluster019314 Uncategoriziedtail tape measure protein, TIGR01764692                 
20p-cluster002144 COG0847 [L]DNA polymerase III subunit alpha4353                 
21p-cluster014941 Uncategoriziedautotransporter beta-domain protein4296            * *  
22p-cluster001776 COG3210 [U]filamentous hemagglutinin4263                 
23p-cluster015422 COG5295 [UW]Hep/Hag repeat protein4215                 
24p-cluster006581 COG5651 [N]autotransporter4092* *     *        
25p-cluster009457 COG5283 [S]hypothetical protein4044                 
26p-cluster003801 Uncategoriziedhypothetical protein4020*           *    
27p-cluster006045 COG3210 [U]hypothetical protein3992  * * * * *      
28p-cluster001163 COG0086 [K]DNA-directed RNA polymerase subunit3969                 
29p-cluster017176 COG2003 [L]PF04002 family protein3891            *    
30p-cluster016026 Uncategoriziedhypothetical protein3766            *   *
31p-cluster000179 COG1429 [H]hydrogenase expression protein HypE3738        *        
32p-cluster005529 UncategoriziedATP:cob(I)alamin adenosyltransferas3723  *              
33p-cluster000880 COG0046 [F]phosphoribosylformylglycinamidine s3678  *   * *        
34p-cluster004228 COG1002 [V]restriction endonuclease3642    *            
35p-cluster017410 Uncategoriziedhypothetical protein3633                 
36p-cluster000043 Uncategoriziedhypothetical protein3633      *          
37p-cluster001959 Uncategoriziedhypothetical protein3606*   *            
38p-cluster000107 COG0674 [C]Pyruvate-flavodoxin oxidoreductase3582                 
39p-cluster001164 COG0085 [K]DNA-directed RNA polymerase subunit3555  *              
40p-cluster001010 COG1196 [D]chromosome segregation protein SMC3519    *   * *      
41p-cluster009456 Uncategoriziedhypothetical protein3480                 
42p-cluster002267 COG3468 [MU]lipase3447  *   *          
43p-cluster000558 COG5295 [UW]hypothetical protein3405* *   * * * * * *
44p-cluster000027 COG0553 [KL]helicase SNF3405    *            
45p-cluster000947 Uncategoriziedhypothetical protein3379*     *          
46p-cluster000766 Uncategoriziedhypothetical protein3366                 
47p-cluster000545 COG0318 [IQ]acyl-CoA synthetase3357                 
48p-cluster002150 COG4913 [S]hypothetical protein3354  * *   *        
49p-cluster017642 COG5295 [UW]hemagglutinin3351                 
50p-cluster016602 Uncategoriziedhypothetical protein3348                 

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