# Supplementary Data for:
#
# S Pechmann & J Frydman. Evolutionary conservation of codon optimality reveals
# hidden signatures of co-translational folding. Nat Struct Mol Biol (2012)
#
#
# Optimal (O) and nonoptimal (N) codons as defined in cTE: 
#
# S.cerevisiae (Scer), C.glabrata (Cgla), D.hansenii (Dhan), K.lactis (Klac),
# S.bayanus (Sbay), S.kluyveri (Sklu), S.mikatae (Smik), S.paradoxus (Spar),
# S.pombe (Spom), Y.lipolytica (Ylip)
#
# Codons are optimal if overrepresented in the most highly expressed genes, 
# and nonoptimal otherwise as defined in (Mol Biol Evol 26:1571-1580, 2009)

codons	Scer	Cgla	Dhan	Klac	Sbay	Sklu	Smik	Spar	Spom	Ylip
TTT	N	N	N	N	N	N	N	N	N	N
TTC	O	O	O	O	O	O	O	O	O	O
TTA	N	N	O	N	N	N	N	N	N	N
TTG	O	O	O	O	O	O	O	O	O	N
TCT	O	O	O	O	O	O	O	O	O	O
TCC	O	O	O	O	O	O	O	O	O	O
TCA	N	N	N	N	N	N	N	N	N	N
TCG	N	N	N	N	N	N	N	N	N	N
TAT	N	N	N	N	N	N	N	N	N	N
TAC	O	O	O	O	O	O	O	O	O	O
TGT	O	O	O	O	O	O	O	O	N	N
TGC	N	N	N	N	N	N	N	N	O	O
TGG	N	N	N	N	N	N	N	N	N	N
CTT	N	N	N	N	N	N	N	N	O	O
CTC	N	N	N	N	N	N	N	N	O	O
CTA	N	O	N	N	N	N	N	N	N	N
CTG	N	N	N	N	N	N	N	N	N	N
CCT	N	N	N	N	N	N	N	N	O	N
CCC	N	N	N	N	N	N	N	N	O	O
CCA	O	O	O	O	O	O	O	O	N	N
CCG	N	N	N	N	N	N	N	N	N	N
CAT	N	N	N	N	N	N	N	N	N	N
CAC	O	O	O	O	O	O	O	O	O	O
CAA	O	O	O	O	O	O	O	O	O	N
CAG	N	N	N	N	N	N	N	N	N	O
CGT	O	O	O	O	O	O	O	O	O	N
CGC	N	N	N	N	N	N	N	N	O	N
CGA	N	N	N	N	N	N	N	N	N	O
CGG	N	N	N	N	N	N	N	N	N	N
ATT	O	O	O	O	O	O	O	O	O	N
ATC	O	O	O	O	O	O	O	O	O	O
ATA	N	N	N	N	N	N	N	N	N	N
ATG	N	N	N	N	N	N	N	N	N	N
ACT	O	O	O	O	O	O	O	O	O	N
ACC	O	O	O	O	O	O	O	O	O	O
ACA	N	N	N	N	N	N	N	N	N	N
ACG	N	N	N	N	N	N	N	N	N	N
AAT	N	N	N	N	N	N	N	N	N	N
AAC	O	O	O	O	O	O	O	O	O	O
AAA	N	N	N	N	N	N	N	N	N	N
AAG	O	O	O	O	O	O	O	O	O	O
AGT	N	N	N	N	N	N	N	N	N	N
AGC	N	N	N	N	N	N	N	N	O	N
AGA	O	O	O	O	O	O	O	O	N	N
AGG	N	N	N	N	N	N	N	N	N	N
GTT	O	O	O	O	O	O	O	O	O	O
GTC	O	O	O	O	O	O	O	O	O	O
GTA	N	N	N	N	N	N	N	N	N	N
GTG	N	N	N	N	N	N	N	N	N	N
GCT	O	O	O	O	O	O	O	O	O	O
GCC	O	O	O	O	O	O	O	O	O	O
GCA	N	N	N	N	N	N	N	N	N	N
GCG	N	N	N	N	N	N	N	N	N	N
GAT	N	N	N	N	N	N	N	N	N	N
GAC	O	O	O	O	O	O	O	O	O	O
GAA	O	O	O	O	O	O	O	O	N	N
GAG	N	N	N	N	N	N	N	N	O	O
GGT	O	O	O	O	O	O	O	O	O	O
GGC	N	N	N	N	N	N	N	N	N	O
GGA	N	N	N	N	N	N	N	N	N	N
GGG	N	N	N	N	N	N	N	N	N	N