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
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-cluster017512 COG1629 [P]TonB-dependent receptor plug domain3315* *   * * *   * *
2p-cluster018230 COG3177 [S]Fic/DOC family protein1059        *     *  
3p-cluster015119 Uncategoriziedhypothetical protein192              *  
4trna-cluster000018 UncategoriziedtRNA-Met77* * * * *     *  
5trna-cluster000017 UncategoriziedtRNA-Leu88* * * * *     *  
6p-cluster001318 COG2827 [L]hypothetical protein345* * * * *     *  
7p-cluster001317 Uncategoriziedhypothetical protein1356    *            
8p-cluster001316 COG0494 [LR]DNA mismatch repair protein MutT540                 
9p-cluster001315 COG1496 [S]hypothetical protein717                 
10p-cluster000680 COG2877 [M]2-dehydro-3-deoxyphosphooctonate al837                 
11p-cluster001313 Uncategoriziedhypothetical protein285  *   * *        
12trna-cluster000016 UncategoriziedtRNA-Leu84  *   * *     *  
13trna-cluster000015 UncategoriziedtRNA-Lys76*   *         * *
14trna-cluster000014 UncategoriziedtRNA-His76              *  
15p-cluster005049 COG2812 [L]ATPase909  * * * * *   * *
16p-cluster001567 COG0443 [O]rod shape-determining protein Mbl1047      *          
17p-cluster001495 COG1939 [S]Mini-ribonuclease 3-like protein408                 
18p-cluster001496 COG0215 [J]cysteinyl-tRNA synthetase1422                 
19p-cluster001497 COG1211 [I]2-C-methyl-D-erythritol 4-phosphate699                 
20p-cluster001498 COG0249 [L]DNA mismatch repair protein MutS2337                 
21p-cluster001499 COG0227 [J]50S ribosomal protein L28258            *    
22p-cluster002288 COG1288 [S]hypothetical protein1512  *         *    
23p-cluster001501 COG0111 [HE]2-hydroxyacid dehydrogenase999    *            
24p-cluster001502 COG0238 [J]30S ribosomal protein S18219    *            
25p-cluster001503 COG0360 [J]30S ribosomal protein S6285    *            
26p-cluster017937 COG0206 [D]cell division protein FtsZ1089                 
27p-cluster001505 COG0849 [D]cell division protein FtsA1260                 
28p-cluster001506 Uncategoriziedcell division protein FtsQ687                 
29p-cluster001507 COG1181 [M]D-alanine--D-alanine ligase867                 
30p-cluster001508 COG0812 [M]UDP-N-acetylenolpyruvoylglucosamine840    *            
31p-cluster001509 COG0773 [M]UDP-N-acetylmuramate--alanine ligas1344                 
32p-cluster001510 COG0707 [M]UDP-N-acetylglucosamine--N-acetylmu1068                 
33p-cluster001511 COG0771 [M]UDP-N-acetylmuramoylalanine--D-glut1302                 
34p-cluster001512 COG0472 [M]phospho-N-acetylmuramoyl-pentapepti1086                 
35p-cluster001513 COG0770 [M]UDP-N-acetylmuramoylalanyl-D-glutam1281                 
36p-cluster001514 COG0241 [E]D,D-heptose 1,7-bisphosphate phosph564                 
37p-cluster001515 COG2404 [R]hypothetical protein1083                 
38p-cluster001516 COG0060 [J]leucyl-tRNA synthetase2559                 
39p-cluster001517 COG1595 [K]RNA polymerase sigma70 factor594                 
40p-cluster000527 COG0566 [J]RNA methyltransferase774                 
41p-cluster001519 COG0766 [M]UDP-N-acetylglucosamine 1-carboxyvi1269                 
42p-cluster001520 Uncategoriziedcarboxypeptidase657                 
43p-cluster001521 COG0533 [O]protein kinase1008                 
44p-cluster001522 COG2137 [R]RecX family transcriptional regulat549  *              
45p-cluster006688 COG0468 [L]protein RecA1071  *              
46p-cluster006687 COG0859 [M]lipopolysaccharide biosynthesis pro1122                 
47p-cluster001525 Uncategoriziedlipopolysaccharide biosynthesis pro690                 
48p-cluster001526 COG0859 [M]ADP-heptose--LPS heptosyltransferas1014                 
49p-cluster001527 COG0859 [M]lipopolysaccharide heptosyltransfer1032                 
50p-cluster001528 COG0463 [M]beta 1,4 glucosyltransferase771                 

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