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-cluster002042 Uncategoriziedhypothetical protein540* *      
2p-cluster000385 COG4385 [R]tail fiber protein567         
3p-cluster000384 COG3948 [R]phage baseplate protein1110         
4p-cluster000383 COG3628 [R]phage baseplate protein369         
5p-cluster000382 COG4540 [R]phage baseplate protein585         
6p-cluster000381 COG3500 [R]hypothetical protein1053         
7p-cluster000380 Uncategoriziedmembrane protein219         
8p-cluster000379 Uncategoriziedtail protein942         
9p-cluster002050 COG5283 [S]hypothetical protein2829         
10p-cluster002051 Uncategoriziedhypothetical protein285         
11p-cluster002052 Uncategoriziedhypothetical protein288         
12p-cluster002053 COG3498 [R]tail protein519         
13p-cluster000376 COG3497 [R]phage tail protein1395         
14p-cluster006967 Uncategoriziedhypothetical protein501         
15p-cluster001514 COG4387 [S]hypothetical protein477      *  
16p-cluster000374 Uncategoriziedhypothetical protein318         
17p-cluster005582 Uncategoriziedhypothetical protein1011         
18p-cluster000372 Uncategoriziedhypothetical protein1110         
19p-cluster000371 Uncategoriziedhypothetical protein456         
20p-cluster000370 COG2369 [S]phage head morphogenesis protein1269         
21p-cluster000369 COG4383 [S]hypothetical protein1419         
22p-cluster000368 COG4373 [R]terminase1311  *      
23p-cluster001519 COG4228 [R]hypothetical protein1356  *   *  
24p-cluster004921 Uncategoriziedphage tail length tape measure prot2364      *  
25p-cluster002065 Uncategoriziedhypothetical protein195         
26p-cluster007712 Uncategoriziedhypothetical protein360         
27p-cluster001518 Uncategoriziedphage tail protein375         
28p-cluster001517 COG4386 [R]tail sheath protein1410      *  
29p-cluster001516 Uncategoriziedhypothetical protein180      *  
30p-cluster002070 Uncategoriziedhypothetical protein264         
31p-cluster001515 COG5003 [R]hypothetical protein648      *  
32p-cluster001514 COG4387 [S]hypothetical protein477      *  
33p-cluster001513 Uncategoriziedtranscriptional regulator369         
34p-cluster001512 COG4397 [R]head protein924         
35p-cluster001511 COG4388 [R]hypothetical protein1077      *  
36p-cluster001510 COG5005 [R]Mu-like prophage FluMu G protein 2465      *  
37p-cluster006920 COG2369 [S]head morphogenesis protein1323         
38p-cluster002078 COG4383 [S]Mu bacteriophage protein gp291647      *  
39p-cluster002079 Uncategoriziedhypothetical protein1617      *  
40p-cluster001508 UncategoriziedDNA-binding protein510  *   *  
41p-cluster000037 COG0316 [S]amino acid ABC transporter substrat594* * * * *
42p-cluster000038 COG1726 [C]Na(+)-translocating NADH-quinone re1347         
43p-cluster000039 COG4658 [C]Na(+)-translocating NADH-quinone re1239         
44p-cluster000040 COG2869 [C]Na(+)-translocating NADH-quinone re777         
45p-cluster000669 COG4660 [C]elongation factor G690      * *
46p-cluster000669 COG4660 [C]elongation factor G690      * *
47p-cluster000043 COG0543 [HC]Na(+)-translocating NADH-quinone re1233        *
48p-cluster000044 Uncategoriziedhypothetical protein429         
49p-cluster000045 COG1708 [R]hypothetical protein300         
50p-cluster000046 COG1178 [P]thiamine transporter1578         

Please send any comment/suggestion to kitticho@uw.edu
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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