hpar 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) HPS-ST41
2) HPS-ST42
3) HPS9
4) HPS10
5) HPS11
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1) HPS-ST41
2) HPS-ST42
3) HPS9
4) HPS10
5) HPS11
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1) HPS-ST41
2) HPS-ST42
3) HPS9
4) HPS10
5) HPS11


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

Haemophilus parasuis ST4-1

Haemophilus parasuis ST4-2

Haemophilus parasuis HPS9

Haemophilus parasuis HPS10

Haemophilus parasuis HPS11

1p-cluster008154 COG2931 [Q]hypothetical protein5592* *   * *
2p-cluster009805 COG5295 [UW]hypothetical protein5056      * *
3p-cluster007120 Uncategoriziedhypothetical protein4890        *
4p-cluster001410 COG3096 [D]cell division protein MukB4491        *
5p-cluster000257 COG0069 [E]glutamate synthase4467*     * *
6p-cluster000509 COG0086 [K]DNA-directed RNA polymerase subunit4284         
7p-cluster000508 COG0085 [K]DNA-directed RNA polymerase subunit4029         
8p-cluster002568 COG1643 [L]ATP-dependent helicase HrpA3996        *
9p-cluster002007 COG1404 [O]hypothetical protein3930*       *
10p-cluster001378 COG2911 [S]tubulin-binding protein3906        *
11p-cluster001295 COG0047 [F]phosphoribosylformylglycinamidine s3897        *
12p-cluster000156 COG1404 [O]hypothetical protein3630* * *    
13p-cluster000035 COG1012 [C]proline dehydrogenase3612         
14p-cluster001534 COG1074 [L]exodeoxyribonuclease V subunit beta3588* * * * *
15p-cluster000565 COG0587 [L]DNA polymerase III subunit alpha3477         
16p-cluster000235 COG1197 [LK]transcription-repair coupling facto3450        *
17p-cluster001062 Uncategoriziedtype III restriction protein, res s3405         
18p-cluster001552 COG5281 [S]phage tail length tape measure prot3375    *    
19p-cluster001273 COG4096 [V]restriction endonuclease subunit R3366        *
20p-cluster000277 COG0668 [M]potassium transporter KefA3294*       *
21p-cluster001324 COG1330 [L]exodeoxyribonuclease V subunit gamm3258         
22p-cluster005580 COG2189 [L]DNA methylase3243         
23p-cluster001545 COG4733 [S]hypothetical protein3234    *    
24p-cluster000549 COG0458 [EF]carbamoyl phosphate synthase large 3201         
25p-cluster003855 COG5295 [UW]hypothetical protein3194* * * * *
26p-cluster000166 COG0610 [V]restriction endonuclease HindVIIP s3165* *      
27p-cluster007094 Uncategoriziedhypothetical protein3093*       *
28p-cluster000518 COG0277 [C]membrane protein3093      *  
29p-cluster000725 COG0841 [V]transporter3090  *   * *
30p-cluster000945 COG0610 [V]DEAD/DEAH box helicase3069*       *
31rrna-cluster000021 Uncategorizied23S ribosomal RNA3032* * * * *
32p-cluster006501 COG3250 [G]beta-galactosidase3021         
33p-cluster004171 COG1530 [J]ribonuclease E2958         
34p-cluster001106 COG0612 [R]protease2943      * *
35p-cluster001625 COG3210 [U]heme transporter CcmD2916      * *
36p-cluster001256 COG0553 [KL]ATP-dependent helicase2907         
37p-cluster001975 COG0258 [L]DNA polymerase I2865         
38p-cluster000864 COG0060 [J]valine--tRNA ligase2865         
39p-cluster000625 COG1391 [OT]glutamine-synthetase adenylyltransf2859        *
40p-cluster003795 COG0553 [KL]ATP-dependent helicase2853         
41p-cluster005217 COG5283 [S]tail protein2832         
42p-cluster002050 COG5283 [S]hypothetical protein2829         
43p-cluster001073 COG0178 [L]excinuclease ABC subunit A2829  *   * *
44p-cluster001540 COG0060 [J]isoleucine--tRNA ligase2817         
45p-cluster001891 COG0567 [C]2-oxoglutarate dehydrogenase2808         
46p-cluster009575 COG1629 [P]transferrin-binding protein2796      * *
47p-cluster001613 UncategoriziedC4-dicarboxylate ABC transporter2718        *
48p-cluster001097 COG2909 [K]transcriptional regulator MalT2718         
49p-cluster001383 COG0653 [U]preprotein translocase subunit SecA2685         
50p-cluster000523 COG0188 [L]DNA gyrase subunit A2667* *   * *

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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