fnuc Gene Table Build 14_03_12 [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) YH7053
2) YH7054
3) YH7055
4) YH7056
5) YH7199
6) animalis-4_8
7) animalis-3_1_33
8) animalis-7_1
9) animalis-D11
10) animalis-ATCC51191
11) animalis-F0419
12) animalis-21_1A
13) animalis-11_3_2
14) fusiforme-ATCC51190
15) nucleatum-ATCC23726
16) polymorphum-ATCC10953
17) polymorphum-F0401
18) vincentii-3_1_36A2
19) vincentii-4_1_13
20) 13_3C
21) CTI-5
22) CTI-6
23) CTI-7
Show genes only present in
1) YH7053
2) YH7054
3) YH7055
4) YH7056
5) YH7199
6) animalis-4_8
7) animalis-3_1_33
8) animalis-7_1
9) animalis-D11
10) animalis-ATCC51191
11) animalis-F0419
12) animalis-21_1A
13) animalis-11_3_2
14) fusiforme-ATCC51190
15) nucleatum-ATCC23726
16) polymorphum-ATCC10953
17) polymorphum-F0401
18) vincentii-3_1_36A2
19) vincentii-4_1_13
20) 13_3C
21) CTI-5
22) CTI-6
23) CTI-7
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Some genomes (Variable genes)

Show genes not present in
1) YH7053
2) YH7054
3) YH7055
4) YH7056
5) YH7199
6) animalis-4_8
7) animalis-3_1_33
8) animalis-7_1
9) animalis-D11
10) animalis-ATCC51191
11) animalis-F0419
12) animalis-21_1A
13) animalis-11_3_2
14) fusiforme-ATCC51190
15) nucleatum-ATCC23726
16) polymorphum-ATCC10953
17) polymorphum-F0401
18) vincentii-3_1_36A2
19) vincentii-4_1_13
20) 13_3C
21) CTI-5
22) CTI-6
23) CTI-7


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

Fusobacterium nucleatum YH7053

Fusobacterium nucleatum YH7054

Fusobacterium nucleatum YH7055

Fusobacterium nucleatum YH7056

Fusobacterium nucleatum YH7199

Fusobacterium nucleatum subsp. animalis 4_8

Fusobacterium nucleatum subsp. animalis 3_1_33

Fusobacterium nucleatum subsp. animalis 7_1

Fusobacterium nucleatum subsp. animalis D11

Fusobacterium nucleatum subsp. animalis ATCC 51191

Fusobacterium nucleatum subsp. animalis F0419

Fusobacterium nucleatum subsp. animalis 21_1A

Fusobacterium nucleatum subsp. animalis 11_3_2

Fusobacterium nucleatum subsp. fusiforme ATCC 5119

Fusobacterium nucleatum subsp. nucleatum ATCC 2372

Fusobacterium nucleatum subsp. polymorphum ATCC 10

Fusobacterium nucleatum subsp. polymorphum F0401

Fusobacterium nucleatum subsp. vincentii 3_1_36A2

Fusobacterium nucleatum subsp. vincentii 4_1_13

Fusobacterium nucleatum 13_3C

Fusobacterium nucleatum CTI-5

Fusobacterium nucleatum CTI-6

Fusobacterium nucleatum CTI-7

1p-cluster000533 COG0039 [C]lactate dehydrogenase957                  *                          
2p-cluster000440 COG0055 [C]ATP synthase subunit A1770                                             
3p-cluster001394 COG0055 [C]ATP F0F1 synthase subunit alpha1503                                             
4p-cluster001396 COG0055 [C]ATP F0F1 synthase subunit beta1389                                             
5p-cluster000101 COG0221 [C]inorganic pyrophosphatase354* * * * *   *   * *         *           * *  
6p-cluster001395 COG0224 [C]ATP synthase subunit gamma849                                             
7p-cluster001907 COG0240 [C]glycerol-3-phosphate dehydrogenase1008                  *                          
8p-cluster000714 COG0247 [C](Fe-S)-binding protein2160                                             
9p-cluster000710 COG0277 [C]2-hydroxy-acid oxidase1428                                             
10p-cluster015810 COG0280 [C]phosphotransacetylase1014                  *                          
11p-cluster005232 COG0281 [C]malate dehydrogenase1629                                             
12p-cluster000513 COG0282 [C]acetate kinase1197                                             
13p-cluster001397 COG0355 [C]ATP synthase subunit epsilon405                                             
14p-cluster001390 COG0356 [C]ATP synthase subunit A768                                             
15p-cluster029501 COG0426 [C]flavoprotein1435*     *           *       * *                
16p-cluster000241 COG0427 [C]4-hydroxybutyrate CoA-transferase1305  *               *                          
17p-cluster003011 COG0554 [C]glycerol kinase1494                                             
18p-cluster011989 COG0584 [C]glycerophosphoryl diester phosphodi1077                          *                  
19p-cluster019003 COG0584 [C]glycerophosphodiester phosphodieste780                                             
20p-cluster000444 COG0636 [C]ATP synthase subunit K483                          *                  
21p-cluster001391 COG0636 [C]ATP synthase F0F1 subunit C270                                             
22p-cluster016558 COG0644 [C]oxidoreductase FixC1347                                             
23p-cluster032940 COG0667 [C]oxidoreductase, aldo/keto reductase873                                             
24p-cluster028093 COG0674 [C]pyruvate ferredoxin/flavodoxin oxid240                                             
25p-cluster033018 COG0674 [C]hypothetical protein165                                             
26p-cluster001392 COG0711 [C]ATP synthase subunit B492                                             
27p-cluster031714 COG0712 [C]ATP synthase F1, delta subunit534                                             
28p-cluster000113 COG0716 [C]flavodoxin432                  *                          
29p-cluster000186 COG0716 [C]flavodoxin510                  *                          
30p-cluster005304 COG0716 [C]flavodoxin573                  *                          
31p-cluster008083 COG0716 [C]flavodoxin540  *   *                   *                  
32p-cluster016802 COG0716 [C]hypothetical protein120                                             
33p-cluster019824 COG0716 [C]flavodoxin522                  *                          
34p-cluster021054 COG0716 [C]flavodoxin529        *         *         *                
35p-cluster032695 COG0716 [C]hypothetical protein468                                             
36p-cluster034685 COG0716 [C]flavodoxin129                                             
37p-cluster021797 COG0731 [C]Fe-S oxidoreductase906*                 *