stack.dgd

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 ENERGIES : 
 
          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'   
  .     .     .     .     .     .     .     .     .     .     .     .     .     .     .   -1.00 
  .     .     .     .     .     .     .     .     .     .     .     .     .     .   -1.44   .   
  .     .     .     .     .     .     .     .     .     .     .     .     .   -1.28   .   +0.71 
  .     .     .     .     .     .     .     .     .     .     .     .   -0.88   .   +0.07   .   
 
 
          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'   
  .     .     .     .     .     .     .     .     .     .     .   -1.45   .     .     .     .   
  .     .     .     .     .     .     .     .     .     .   -1.84   .     .     .     .     .    
  .     .     .     .     .     .     .     .     .   -2.17   .   -0.47   .     .     .     .    
  .     .     .     .     .     .     .     .   -1.28   .   -0.32   .     .     .     .     .    
 
 
          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'   
  .     .     .     .     .     .     .   -1.30   .     .     .     .     .     .     .   +0.34 
  .     .     .     .     .     .   -2.24   .     .     .     .     .     .     .   -0.59   .    
  .     .     .     .     .   -1.84   .   +0.08   .     .     .     .     .   -0.32   .   +0.74  
  .     .     .     .   -1.44   .   -0.59   .     .     .     .     .   +0.07   .  +1.15    .    
 
 
          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'   
  .     .     .   -0.58   .     .     .     .     .     .     .   +0.43   .     .     .     .    
  .     .   -1.30   .     .     .     .     .     .     .   +0.08   .     .     .     .     .    
  .   -1.45   .   +0.43   .     .     .     .     .   -0.47   .   +0.52   .     .     .     .    
-1.00   .   +0.34   .     .     .     .     .   +0.71   .   +0.74   .     .     .     .     .