#Data table for symmetric interior loops of size 2
#The Enthalpies at 37 degrees for RNA
#Data Arrangement:
#For the 4x4 tables, each starting pair needs its own table.
#This is the AA table:
# 5' --> 3'
# X
# A A
# U U
# Y
# 3' <-- 5'
# Y->
# ----------------------------
# (X) A C G U
# | ----------------------------
# V
# (A) -0.5 -0.5 -0.5 -0.5
# (C) -0.5 -0.5 -0.5 -0.5
# (G) -0.5 -0.5 -8.3 -0.5
# (U) -0.5 -0.5 -0.5 -3.9
#An energy of "." is "infinity," i.e. not allowed.
# 5' --> 3'
X
A A
U U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
A C
U G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -12.3
# 5' --> 3'
X
A G
U C
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
A U
U A
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -7.3
# 5' --> 3'
X
A G
U U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
A U
U G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -7.3
# 5' --> 3'
X
C A
G U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -5.5
# 5' --> 3'
X
C C
G G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -10.5 -10.5 -10.5 -10.5
C -10.5 -10.5 -10.5 -10.5
G -10.5 -10.5 -18.4 -10.5
U -10.5 -10.5 -10.5 -13.9
# 5' --> 3'
X
C G
G C
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -10.5 -10.5 -10.5 -10.5
C -10.5 -10.5 -10.5 -10.5
G -10.5 -10.5 -18.4 -10.5
U -10.5 -10.5 -10.5 -10.5
# 5' --> 3'
X
C U
G A
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
C G
G U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -5.5
# 5' --> 3'
X
C U
G G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
G A
C U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
G C
C G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -10.5 -10.5 -10.5 -10.5
C -10.5 -10.5 -10.5 -10.5
G -10.5 -10.5 -18.4 -10.5
U -10.5 -10.5 -10.5 -17.3
# 5' --> 3'
X
G G
C C
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -10.5 -10.5 -10.5 -10.5
C -10.5 -10.5 -10.5 -10.5
G -10.5 -10.5 -18.4 -10.5
U -10.5 -10.5 -10.5 -13.9
# 5' --> 3'
X
G U
C A
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -12.3
# 5' --> 3'
X
G G
C U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
G U
C G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -12.3
# 5' --> 3'
X
U A
A U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -0.5
# 5' --> 3'
X
U C
A G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
U G
A C
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -5.5
# 5' --> 3'
X
U U
A A
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
U G
A U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -0.5
# 5' --> 3'
X
U U
A G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
G A
U U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
G C
U G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -12.3
# 5' --> 3'
X
G G
U C
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
G U
U A
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -7.3
# 5' --> 3'
X
G G
U U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
G U
U G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -7.3
# 5' --> 3'
X
U A
G U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -0.5
# 5' --> 3'
X
U C
G G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -8.9
# 5' --> 3'
X
U G
G C
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -5.5 -5.5 -5.5 -5.5
C -5.5 -5.5 -5.5 -5.5
G -5.5 -5.5 -13.4 -5.5
U -5.5 -5.5 -5.5 -5.5
# 5' --> 3'
X
U U
G A
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9
# 5' --> 3'
X
U G
G U
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -0.5
# 5' --> 3'
X
U U
G G
Y
# 3' <-- 5'
# Y
# ----------------------------
A C G U
# ----------------------------
A -0.5 -0.5 -0.5 -0.5
C -0.5 -0.5 -0.5 -0.5
G -0.5 -0.5 -8.3 -0.5
U -0.5 -0.5 -0.5 -3.9