#Data Arrangement:
#For the 4x4 tables, each starting pair needs its own table.
#This is the AA table:
# 5' --> 3'
# AX
# UY
# 3' <-- 5'
# Y->
# ----------------------------
# (X) A C G U
# | ----------------------------
# V
# (A) -0.8 -1.0 -0.8 -1.0
# (C) -0.6 -0.7 -0.6 -0.7
# (G) -0.8 -1.0 -0.8 -1.0
# (U) -0.6 -0.8 -0.6 -0.8
#An energy of "." is "infinity," i.e. not allowed.
# 5' --> 3'
AX
UY
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.8 -1.0 -0.8 -1.0
C -0.6 -0.7 -0.6 -0.7
G -0.8 -1.0 -0.8 -1.0
U -0.6 -0.8 -0.6 -0.8
# 5' --> 3'
CX
GY
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -1.5 -1.5 -1.4 -1.5
C -1.0 -1.1 -1.0 -0.8
G -1.4 -1.5 -1.6 -1.5
U -1.0 -1.4 -1.0 -1.2
# 5' --> 3'
GX
CY
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -1.1 -1.5 -1.3 -1.5
C -1.1 -0.7 -1.1 -0.5
G -1.6 -1.5 -1.4 -1.5
U -1.1 -1.0 -1.1 -0.7
# 5' --> 3'
GX
UY
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.3 -1.0 -0.8 -1.0
C -0.6 -0.7 -0.6 -0.7
G -0.6 -1.0 -0.8 -1.0
U -0.6 -0.8 -0.6 -0.6
# 5' --> 3'
UX
AY
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -1.0 -0.8 -1.1 -0.8
C -0.7 -0.6 -0.7 -0.5
G -1.1 -0.8 -1.2 -0.8
U -0.7 -0.6 -0.7 -0.5
# 5' --> 3'
UX
GY
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -1.0 -0.8 -1.1 -0.8
C -0.7 -0.6 -0.7 -0.5
G -0.5 -0.8 -0.8 -0.8
U -0.7 -0.6 -0.7 -0.5