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
All genomes (Core genes)
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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-cluster000713 COG1556 [S](Fe-S)-binding protein552                                             
2p-cluster000714 COG0247 [C](Fe-S)-binding protein2160                                             
3p-cluster001095 Uncategorizied1,3-beta-glucan synthase regulator321                                             
4p-cluster005228 Uncategorizied1,3-beta-glucan synthase regulator678        *                               *    
5p-cluster020047 COG1454 [C]1,3-propanediol dehydrogenase1149* *               *         *                
6p-cluster040429 COG0296 [G]1,4-alpha-glucan branching enzyme1842                                             
7p-cluster000716 COG1575 [H]1,4-dihydroxy-2-naphthoate prenyltr924                                             
8p-cluster025294 COG0204 [I]1-acylglycerol-3-phosphate O-acyltr951                                             
9p-cluster015132 COG0743 [I]1-deoxy-D-xylulose 5-phosphate redu1173                                             
10p-cluster000069 COG1154 [HI]1-deoxy-D-xylulose-5-phosphate synt1803                                             
11p-cluster031475 COG1105 [G]1-phosphofructokinase945                  *                          
12rrna-cluster000001 Uncategorizied16S ribosomal RNA1523* * * * *   * *   * * * *   *       * *   * *
13rrna-cluster000019 Uncategorizied16S ribosomal RNA456    *   *     *           *                  
14p-cluster000048 COG0030 [J]16S rRNA methyltransferase795                  *                          
15p-cluster000427 COG0357 [M]16S rRNA methyltransferase699                                             
16p-cluster004377 COG0275 [M]16S rRNA methyltransferase945* *   * *                                   *
17p-cluster001515 COG0639 [T]2, 3-cyclic nucleotide 2-phosphodie2193                  *                       *  
18p-cluster020449 COG4639 [R]2,3-cyclic nucleotide 3-phosphodies325                  *                          
19p-cluster016378 COG1767 [H]2-(5-triphosphoribosyl)-3-dephospho852*                                            
20p-cluster018298 COG0801 [H]2-amino-4-hydroxy-6- hydroxymethyld846                                             
21p-cluster004580 COG0245 [I]2-C-methyl-D-erythritol 2,4-cyclodi498                  *                          
22p-cluster023536 COG1211 [I]2-C-methyl-D-erythritol 4-phosphate720                                             
23p-cluster031451 COG1211 [I]2-C-methyl-D-erythritol 4-phosphate696                                             
24p-cluster049535 COG0524 [G]2-dehydro-3-deoxygluconokinase1038                                             
25p-cluster028036 COG0800 [G]2-dehydro-3-deoxyphosphogluconate a969                                             
26p-cluster015229 COG2877 [M]2-dehydro-3-deoxyphosphooctonate al888*     * *                                    
27p-cluster027426 COG2877 [M]2-dehydro-3-deoxyphosphooctonate al189                                             
28p-cluster049540 COG1028 [IQR]2-deoxy-D-gluconate 3-dehydrogenase774        *                                    
29p-cluster020830 COG2084 [I]2-hydroxy-3-oxopropionate reductase888                                             
30p-cluster000710 COG0277 [C]2-hydroxy-acid oxidase1428                                             
31p-cluster000619 COG1775 [E]2-hydroxyglutaryl-CoA dehydratase1149                                             
32p-cluster000620 COG1775 [E]2-hydroxyglutaryl-CoA dehydratase1329*                                            
33p-cluster033182 COG0119 [E]2-isopropylmalate synthase1509                                             
34p-cluster019718 Uncategorizied2-keto-3-deoxygluconate permease957                  *                          
35p-cluster030911 COG2070 [R]2-nitropropane dioxygenase170                          *                  
36p-cluster020578 COG2070 [R]2-nitropropane dioxygenase family o1164                  *                          
37rrna-cluster000002 Uncategorizied23S ribosomal RNA2933* * * * *   * *   * * *     *         * *   *
38rrna-cluster000062 Uncategorizied23S ribosomal RNA434              *