#Data Arrangement: #For the 4x4 tables, each starting pair needs its own table. #This is the AA table: # 5' --> 3' # AX # TY # 3' <-- 5' # Y-> # ---------------------------- # (X) A C G U # | ---------------------------- # V # (A) . . . -7.2 # (C) . . -7.8 . # (G) . -5.8 . +3.7 # (U) -5.3 . -1.7 . #An energy of "." is "infinity," i.e. not allowed. # 5' --> 3' AX TY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -7.2 C . . -7.8 . G . -5.8 . +3.7 U -5.3 . -1.7 . # 5' --> 3' CX GY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -9.9 C . . -7.5 . G . -9.8 . -4.3 U -5.8 . -2.4 . # 5' --> 3' GX CY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -8.5 C . . -7.9 . G . -7.5 . 4.3 U -7.8 . -2.4 . # 5' --> 3' GX TY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -0.9 C . . -2.4 . G . -2.4 . +8.0 U -1.7 . +5.0 . # 5' --> 3' TX AY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -6.7 C . . -8.5 . G . -9.9 . -0.9 U -7.2 . -0.9 . # 5' --> 3' TX GY # 3' <-- 5' # Y # ---------------------------- A C G U # ---------------------------- A . . . -0.9 C . . +4.3 . G . -4.3 . -6.7 U +3.4 . +8.0 .