stack.dhd

mfold

Data Arangement: 
                 Y 
         ------------------ 
     (X)  A    C    G    T 
         ------------------ 
             5' ==> 3' 
                AX 
                AY 
             3' <== 5' 
     (A)   .     .     .     . 
     (C)   .     .     .     . 
     (G)   .     .     .     . 
     (T) -0.70 -0.10 -0.70 -0.10 
-------------------------------- 
STACKING ENTHALPIES : 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    T        A    C    G    T        A    C    G    T        A    C    G    T 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         AX                      AX                      AX                      AX 
         AY                      CY                      GY                      TY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .     .     .     .     .     .     .     .     .     .     .     .     .   -7.90 
  .     .     .     .     .     .     .     .     .     .     .     .     .     .   -8.40   . 
  .     .     .     .     .     .     .     .     .     .     .     .     .   -7.80   .   +1.00 
  .     .     .     .     .     .     .     .     .     .     .     .   -7.20   .   -2.50   . 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    T        A    C    G    T        A    C    G    T        A    C    G    T 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         CX                      CX                      CX                      CX 
         AY                      CY                      GY                      TY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .     .     .     .     .     .     .     .     .   -8.50   .     .     .     . 
  .     .     .     .     .     .     .     .     .     .   -8.00   .     .     .     .     . 
  .     .     .     .     .     .     .     .     .   -10.60  .   -4.10   .     .     .     . 
  .     .     .     .     .     .     .     .   -7.80   .   -2.80   .     .     .     .     . 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    T        A    C    G    T        A    C    G    T        A    C    G    T 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         GX                      GX                      GX                      GX 
         AY                      CY                      GY                      TY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .     .     .     .     .   -8.20   .     .     .     .     .     .     .   -1.30 
  .     .     .     .     .     .   -9.80   .     .     .     .     .     .     .   -4.40   . 
  .     .     .     .     .   -8.00   .   +3.30   .     .     .     .     .   -2.80   .   +5.80 
  .     .     .     .   -8.40   .   -4.40   .     .     .     .     .   -2.50   .   +4.10   . 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    T        A    C    G    T        A    C    G    T        A    C    G    T 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         TX                      TX                      TX                      TX 
         AY                      CY                      GY                      TY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .   -7.20   .     .     .     .     .     .     .   -0.10   .     .     .     . 
  .     .   -8.20   .     .     .     .     .     .     .   +3.30   .     .     .     .     . 
  .   -8.50   .   -0.10   .     .     .     .     .   -4.10   .   -1.40   .     .     .     . 
-7.90   .   -1.30   .     .     .     .     .   +1.00   .   +5.80   .     .     .     .     .