hpar 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) HPS-ST41
2) HPS-ST42
3) HPS9
4) HPS10
5) HPS11
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1) HPS-ST41
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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-cluster003731 COG4143 [H]thiamine ABC transporter substrate-984         
2p-cluster001000 COG1198 [L]primosomal protein N2199        *
3p-cluster001002 COG2962 [R]permease882*       *
4p-cluster001002 COG2962 [R]permease882*       *
5p-cluster001003 COG0436 [E]aminotransferase1218*        
6p-cluster001004 COG0147 [EH]isochorismate synthase1275         
7p-cluster001005 COG0671 [I]phosphatidylglycerophosphatase723         
8p-cluster001006 COG1940 [KG]N-acetylglucosamine kinase915         
9p-cluster001007 COG0491 [R]hydroxyacylglutathione hydrolase708         
10p-cluster001008 COG0020 [I]UDP pyrophosphate synthase714        *
11p-cluster001009 COG0575 [I]phosphatidate cytidylyltransferase870         
12p-cluster001010 COG0750 [M]zinc metallopeptidase RseP1320        *
13p-cluster001011 COG4775 [M]outer membrane protein assembly pro2418         
14p-cluster001012 COG2825 [M]membrane protein804         
15p-cluster001013 COG1044 [M]UDP-3-O-(3-hydroxymyristoyl) glucos1026         
16p-cluster001014 COG0764 [I]3-hydroxyacyl-ACP dehydratase468         
17p-cluster001013 COG1044 [M]UDP-3-O-(3-hydroxymyristoyl) glucos1026         
18p-cluster001016 COG0527 [E]aspartate kinase2445    *    
19p-cluster001017 COG0083 [E]serine kinase948         
20p-cluster001018 COG0287 [E]prephenate dehydrogenase1122         
21p-cluster000621 COG0722 [E]phospho-2-dehydro-3-deoxyheptonate 1068         
22p-cluster001020 COG0859 [M]glycosyl transferase1029        *
23p-cluster001021 COG2920 [P]sulfur transfer protein TusE339        *
24p-cluster006184 COG0737 [F]2, 3-cyclic nucleotide 2-phosphodie1974         
25p-cluster001022 COG0737 [F]hypothetical protein339         
26p-cluster001023 COG1115 [E]sodium:alanine symporter1449         
27p-cluster001024 COG2215 [R]cobalt transporter978         
28p-cluster001025 COG3683 [R]ABC transporter substrate-binding p642         
29p-cluster006188 COG3630 [C]Oxaloacetate decarboxylase gamma ch255      *  
30p-cluster006189 COG5016 [C]oxaloacetate decarboxylase1806        *
31p-cluster006190 COG1883 [C]oxaloacetate decarboxylase subunit 1305         
32p-cluster000066 COG2824 [P]hypothetical protein321         
33p-cluster001210 COG0299 [F]formyltetrahydrofolate deformylase837        *
34p-cluster000068 COG0114 [C]aspartate ammonia-lyase1428         
35p-cluster006194 Uncategoriziedhypothetical protein204         
36p-cluster000069 COG0326 [O]heat shock protein 901887    *    
37p-cluster002113 COG2027 [M]D-alanyl-D-alanine carboxypeptidase1440    *    
38p-cluster003344 COG0782 [K]transcription elongation factor Gre489* * *   *
39p-cluster004746 COG3328 [L]transposase183         
40p-cluster005626 COG3328 [L]transposase344*   * * *
41p-cluster002438 COG0463 [M]glycosyltransferase888      *  
42p-cluster001651 Uncategoriziedhypothetical protein507         
43p-cluster006200 Uncategoriziedmembrane protein1191         
44p-cluster006201 COG3306 [M]Lsg locus protein 4777         
45p-cluster004376 UncategoriziedCMP-N-acetylneuraminate-beta-galact969        *
46p-cluster007473 COG2244 [R]Lsg locus protein 12136         
47p-cluster000734 COG1083 [M]acylneuraminate cytidylyltransferas681         
48p-cluster001649 COG1434 [S]hypothetical protein744         
49p-cluster001648 Uncategoriziedmembrane protein708         
50p-cluster001647 COG0860 [M]N-acetylmuramoyl-L-alanine amidase1113         

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Gene Completeness


: Similar sequence present
: Not present

* : Within 300 bp from ends
F : Possible frameshift
I : Island genes