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-cluster019953 Uncategoriziedhypothetical protein129                *
2p-cluster002483 Uncategoriziedhypothetical protein711                *
3p-cluster011884 Uncategoriziedhypothetical protein501                 
4p-cluster009592 Uncategoriziedhypothetical protein621                 
5p-cluster011883 COG5525 [R]hypothetical protein3228                 
6p-cluster002486 Uncategoriziedhypothetical protein219                 
7p-cluster002487 COG5511 [R]portal protein1542                 
8p-cluster002488 COG0740 [OU]Clp protease proteolytic subunit Cl1116                 
9p-cluster002489 Uncategoriziedhypothetical protein321                 
10p-cluster002490 Uncategoriziedhypothetical protein1008                 
11p-cluster002491 Uncategoriziedhypothetical protein303                 
12p-cluster002492 Uncategoriziedhypothetical protein315                 
13p-cluster002493 Uncategoriziedhypothetical protein609                 
14p-cluster002494 Uncategoriziedhypothetical protein468                 
15p-cluster004727 Uncategoriziedhypothetical protein270                 
16p-cluster009604 COG3497 [R]phage tail protein1461        *        
17p-cluster011874 Uncategoriziedhypothetical protein608        *        
18p-cluster002497 COG3498 [R]tail tube protein534                 
19p-cluster002498 Uncategoriziedhypothetical protein336                 
20p-cluster019970 Uncategoriziedhypothetical protein156                 
21p-cluster011870 Uncategoriziedhypothetical protein264        *        
22p-cluster002500 COG5283 [S]hypothetical protein2586        *        
23p-cluster002501 Uncategoriziedhypothetical protein210                 
24p-cluster004734 COG3500 [R]late control protein D1092  *              
25p-cluster003440 Uncategoriziedhypothetical protein225  *              
26p-cluster003439 COG4540 [R]baseplate assembly protein516  *              
27p-cluster003438 Uncategoriziedhypothetical protein387                 
28p-cluster003437 Uncategoriziedhypothetical protein312                 
29p-cluster009614 COG3948 [R]baseplate assembly protein1119                 
30p-cluster003435 COG4385 [R]phage tail protein564                 
31p-cluster019980 Uncategoriziedhypothetical protein1299                 
32p-cluster015322 Uncategoriziedhypothetical protein710            *    
33p-cluster019981 COG0582 [L]site-specific recombinase, phage in978            *    
34p-cluster019982 Uncategoriziedhypothetical protein756            *    
35p-cluster019382 COG5632 [M]serine-type D-Ala-D-Ala carboxypept465    * *   *      
36p-cluster014818 Uncategoriziedhypothetical protein369                 
37p-cluster019985 Uncategoriziedputative lipoprotein252                 
38p-cluster020214 COG4824 [R]toxin secretion/phage lysis holin477*                
39p-cluster019987 Uncategoriziedhypothetical protein564                 
40p-cluster019988 Uncategoriziedhypothetical protein759                 
41p-cluster019989 Uncategoriziedhypothetical protein654                 
42p-cluster019990 Uncategoriziedhypothetical protein576                 
43p-cluster005049 COG2812 [L]ATPase909  * * * * *   * *
44p-cluster001567 COG0443 [O]rod shape-determining protein Mbl1047      *          
45p-cluster001495 COG1939 [S]Mini-ribonuclease 3-like protein408                 
46p-cluster001496 COG0215 [J]cysteinyl-tRNA synthetase1422                 
47p-cluster001497 COG1211 [I]2-C-methyl-D-erythritol 4-phosphate699                 
48p-cluster001498 COG0249 [L]DNA mismatch repair protein MutS2337                 
49p-cluster001499 COG0227 [J]50S ribosomal protein L28258            *    
50p-cluster002288 COG1288 [S]hypothetical protein1512  *         *    

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