Table 2 represents an evaluation of the alternative versions of the pathway of de novo Pyrimidine biosynthesis in B. subtilis.
The 1st column represents a combination of the enzymes an alternative version under consideration.
The 2nd column lists IDs particular ORFs in B. subtilis corresponding to the specific EC numbers from the column 1 (WIT IDs are used in this case).
The 3rd column displays the probability scores of occurrence of a particular alternative version of a pathway in a given organism. The scores are calculated according to the following algorithm:
 
2 + (EF - EM - 0.5 * ENS)
--------------------
(ET) 
 
EF  -- number of enzymes found in the genome
EM -- number of enzymes from particular version of a pathway missing in the genome
ENS -- number of enzymes that are not sequenced in any organisms and thus are impossible to recognize via conventional sequence analysis techniques
ET-- total number of enzymes in pathway

*Signature enzymes count double.

 
Table 2. Evaluation of the alternative versions of the pathway
of 'de novo' Pyrimidine Biosynthesis in B. subtilis

Pathways RIDs found Score (from 0 to 4)*
6.3.5.5 
2.1.3.2 
3.5.2.3    (sig) 
1.3.3.1 
2.4.2.10 
4.1.1.23    (sig) 		 RBS01125, RBS01552, RBS01553, RBS01124
RBS01550
RBS01551
RBS01555
RBS01557
RBS01556		 3.333
6.3.5.5 
2.1.3.2 
3.5.2.3    (sig) 
1.3.3.1 
2.4.2.10 
4.1.1.23    (sig) 		 RBS01125, RBS01552, RBS01553, RBS01124
RBS01550
RBS01551
RBS01555
RBS01557
RBS01556		 3.333
2.7.2.2 
2.1.3.2 
3.5.2.3    (sig) 
1.3.3.1 
2.4.2.10 
4.1.1.23    (sig) 		 missing 
RBS01550
RBS01551
RBS01555
RBS01557
RBS01556		 3.0
Table 2 continues on next page.





Table 2 continued
Pathways RIDs found Score (from 0 to 4)*
6.3.5.5 
2.1.3.2 
3.5.2.3    (sig) 
1.3.99.11 
2.4.2.10 
4.1.1.23    (sig) 		 RBS01125, RBS01552, RBS01553, RBS01124
RBS01550
RBS01551
missing 
RBS01557
RBS01556		 3.0
6.3.5.5 
2.1.3.2 
3.5.2.3    (sig) 
1.3.1.14 
2.4.2.10 
4.1.1.23    (sig) 		 RBS01125, RBS01552, RBS01553, RBS01124
RBS01550
RBS01551
missing 
RBS01557
RBS01556		 3.0
6.3.5.5 
2.1.3.2 
3.5.2.3    (sig) 
1.3.99.11 
2.4.2.10 
4.1.1.23    (sig) 		 RBS01125, RBS01552, RBS01553, RBS01124
RBS01550
RBS01551
missing 
RBS01557
RBS01556		 3.0
6.3.5.5 
2.1.3.2 
3.5.2.3    (sig) 
1.3.1.14 
2.4.2.10 
4.1.1.23    (sig) 		 RBS01125, RBS01552, RBS01553, RBS01124
RBS01550
RBS01551
missing 
RBS01557
RBS01556		 3.0
2.7.2.2 
2.1.3.2 
3.5.2.3    (sig) 
1.3.99.11 
2.4.2.10 
4.1.1.23    (sig) 		 missing 
RBS01550
RBS01551
missing 
RBS01557
RBS01556		 2.667
2.7.2.2 
2.1.3.2 
3.5.2.3    (sig) 
1.3.1.14 
2.4.2.10 
4.1.1.23    (sig) 		 missing 
RBS01550
RBS01551
missing 
RBS01557
RBS01556		 2.667