P. putida - P. syringae - E. coli reciprocal-best-BLAST-hit (RBH)-based dataset for protein sequences

The ingroup/outgroup definitions are as follows:
ingroup1 = Escherichia coli K12
ingroup2 = Pseudomonas putida KT2440
outgroup = Pseudomonas syringae pv. tomato str. DC3000

The ratios are computed as follows:
ratio1 - dist(P.putida,P.syringae)/dist(P.putida,E.coli)
ratio2 - dist(P.putida,P.syringae)/dist(P.syringae,E.coli)
ratio3 - dist(P.putida,E.coli)/dist(P.syringae,E.coli)

Supporting-species-divergence (ssd) classification types:
class 1 - ssd-ortholog
class 2 - uncertain ssd-ortholog
class 3 - non-ssd-orthologs (probable paralogs)


Each file record is composed of the following tab-delimited fields:

1) 	P. putida gene id - ingroup1 for the putative ortholog set
2) 	P. syringae gene id - ingroup2 for the putative ortholog set
3) 	E. coli gene id - outgroup for the putative ortholog set
4) 	ratio 1
5) 	ratio 2
6) 	ratio 3
7) 	ssd-ortholog classification
8) 	P. putida in-paralog candidates (each entry is delimited by ";"), if any
9) 	P. syringae in-paralog candidates (each entry is delimited by ";"), if any