#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