#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) . . . -0.9 # (C) . . -2.2 . # (G) . -2.1 . -0.6 # (U) -1.1 . -1.4 . #An energy of "." is "infinity," i.e. not allowed. # 5' --> 3' AX UY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -0.9 C . . -2.2 . G . -2.1 . -0.6 U -1.1 . -1.4 . # 5' --> 3' CX GY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -2.1 C . . -3.3 . G . -2.4 . -1.4 U -2.1 . -2.1 . # 5' --> 3' GX CY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -2.4 C . . -3.4 . G . -3.3 . -1.5 U -2.2 . -2.5 . # 5' --> 3' GX UY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -1.3 C . . -2.5 . G . -2.1 . -0.5 U -1.4 . +1.3 . # 5' --> 3' UX AY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -1.3 C . . -2.4 . G . -2.1 . -1.0 U -0.9 . -1.3 . # 5' --> 3' UX GY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -1.0 C . . -1.5 . G . -1.4 . +0.3 U -0.6 . -0.5 .