tstacki.dh

mfold

Data Arangement: 
                 Y 
         ------------------ 
     (X)  A    C    G    U 
         ------------------ 
             5' ==> 3' 
                AX 
                AY 
             3' <== 5' 
     (A)   .     .     .     . 
     (C)   .     .     .     . 
     (G)   .     .     .     . 
     (U) -0.70 -0.10 -0.70 -0.10 
-------------------------------- 
STACKING ENTHALPIES : TERMINAL MISMATCHES 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    U        A    C    G    U        A    C    G    U        A    C    G    U 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         AX                      AX                      AX                      AX 
         AY                      CY                      GY                      UY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .   -4.00   .     .     .   -4.30   .     .     .   -3.80 -4.30 -6.00 -6.00 -6.00 
  .     .   -5.20   .     .     .   -7.20   .     .     .   -7.10   .   -2.60 -2.40 -2.40 -2.40 
  .   -10.30  .   -7.20   .   -5.20   .   -4.80   .   -9.40   .   -6.60 -3.40 -6.90 -6.90 -6.90 
-4.30   .   -4.30   .   -2.60   .   -2.60   .   -3.40   .   -3.40   .   -3.30 -3.30 -3.30 -3.30 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    U        A    C    G    U        A    C    G    U        A    C    G    U 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         CX                      CX                      CX                      CX 
         AY                      CY                      GY                      UY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .   -6.30   .     .     .   -5.10 -10.30-9.50 -10.30-10.30  .     .     .   -1.40 
  .     .   -8.80   .     .     .   -3.10   .   -5.20 -4.50 -5.20 -6.70   .     .   -5.00   . 
  .   -9.50   .   -7.90   .   -4.50   .   -4.80 -9.40 -9.40 -9.40 -9.40   .   -7.40   .   -4.40 
-6.00   .   -6.00   .   -2.40   .   -2.40   .   -8.10 -7.40 -8.10 -8.60 -3.30   .   -3.30   . 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    U        A    C    G    U        A    C    G    U        A    C    G    U 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         GX                      GX                      GX                      GX 
         AY                      CY                      GY                      UY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
  .     .     .   -8.90 -5.20 -8.80 -5.60 -8.80   .     .     .   -8.90 -4.30 -6.00 -6.00 -6.00 
  .     .   -5.60   .   -7.20 -3.10 -3.10 -3.90   .     .   -6.20   .   -2.60 -2.40 -2.40 -2.40 
  .   -10.30  .   -9.60 -7.10 -7.40 -6.20 -7.40   .   -9.40   .   -9.20 -3.40 -6.90 -6.90 -6.90 
-6.00   .   -6.00   .   -5.00 -5.00 -5.00 -5.70 -6.90   .   -6.90   .   -3.30 -3.30 -3.30 -3.30 

          Y                       Y                       Y                       Y 
  ------------------      ------------------      ------------------      ------------------ 
   A    C    G    U        A    C    G    U        A    C    G    U        A    C    G    U 
  ------------------      ------------------      ------------------      ------------------ 
      5' --> 3'               5' --> 3'               5' --> 3'               5' --> 3' 
         UX                      UX                      UX                      UX 
         AY                      CY                      GY                      UY 
      3' <-- 5'               3' <-- 5'               3' <-- 5'               3' <-- 5' 
-4.00 -6.30 -8.90 -5.90   .     .     .   -1.80 -7.20 -7.90 -9.60 -8.10   .     .     .    1.40 
-4.30 -5.10 -2.00 -1.80   .     .   -3.90   .   -4.80 -4.80 -3.60 -4.80   .     .   -5.70   . 
-3.80 -6.80 -8.90 -6.80   .   -6.70   .   -4.80 -6.60 -8.10 -9.20 -8.10   .   -8.60   .   -3.60 
-2.80 -1.40 -2.80 -1.40 -2.40   .   -2.40   .   -5.50 -4.40 -5.50 -3.60 -3.30   .   -3.30   .