rna.pdb rna.out 2 # duplex 28 # number of base-pairs 1 1 # explicit bp numbering/hetero atoms 1 71 0 # 1 | C:.501_:[..G]G-----C[..C]:.572_:C 0.56 0.35 18.97 8.97 -0.25 2 70 0 # 2 | C:.502_:[..G]G-*---U[..U]:.571_:C 2.33 0.47 14.75 8.90 3.27 3 69 0 # 3 | C:.503_:[..C]C-----G[..G]:.570_:C 0.18 0.14 16.97 9.04 -1.03 4 68 0 # 4 | C:.504_:[..C]C-----G[..G]:.569_:C 0.38 0.16 14.81 9.02 -0.79 5 67 0 # 5 | C:.505_:[..C]C-----G[..G]:.568_:C 0.18 0.06 11.78 9.01 -1.21 6 66 0 # 6 | C:.506_:[..C]C-----G[..G]:.567_:C 0.48 0.30 14.08 8.85 -0.42 7 65 0 # 7 | C:.507_:[..A]A-----U[..U]:.566_:C 0.75 0.10 10.21 9.15 -0.54 48 64 0 # 8 | C:.549_:[..G]G-----C[..C]:.565_:C 0.94 0.33 8.69 9.15 0.10 49 63 0 # 9 | C:.550_:[..G]G-----C[..C]:.564_:C 0.65 0.39 5.19 9.05 -0.08 50 62 0 # 10 | C:.551_:[..G]G-----C[..C]:.563_:C 0.43 0.08 1.99 9.00 -0.90 51 61 0 # 11 | C:.552_:[..G]G-----C[..C]:.562_:C 0.38 0.33 5.32 8.91 -0.46 52 60 0 # 12 | C:.553_:[..G]G-----C[..C]:.561_:C 0.86 0.59 1.42 8.93 0.55 53 57 0 # 13 | C:.554_:[..U]U-**--A[..A]:.558_:C 4.27 0.77 8.21 7.68 5.82 54 17 9 # 14 x C:.555_:[..U]U-**+-G[..G]:.518_:C 5.88 0.48 24.78 8.25 6.84 38 32 0 # 15 | C:.538_:[..A]A-*---C[..C]:.532_:C 4.95 1.34 17.98 9.50 7.63 39 31 0 # 16 | C:.539_:[..G]G-----C[..C]:.531_:C 0.28 0.10 13.45 8.93 -1.01 40 30 0 # 17 | C:.540_:[..G]G-----C[..C]:.530_:C 0.81 0.06 11.78 8.88 -0.57 41 29 0 # 18 | C:.541_:[..C]C-----G[..G]:.529_:C 0.70 0.03 7.46 8.67 -0.73 42 28 0 # 19 | C:.542_:[..C]C-----G[..G]:.528_:C 0.38 0.12 9.74 8.92 -0.88 43 27 0 # 20 | C:.543_:[..G]G-----C[..C]:.527_:C 0.12 0.07 28.40 8.99 -1.23 44 26 0 # 21 | C:.544_:[..A]A-*---G[..G]:.526_:C 1.58 0.19 29.87 10.68 1.95 10 25 0 # 22 | C:.510_:[..G]G-----C[..C]:.525_:C 0.40 0.35 13.12 8.89 -0.39 11 24 0 # 23 | C:.511_:[..U]U-----A[..A]:.524_:C 0.63 0.12 11.90 8.73 -0.64 12 23 0 # 24 | C:.512_:[..C]C-----G[..G]:.523_:C 0.26 0.00 4.91 8.89 -1.23 13 22 0 # 25 | C:.513_:[..U]U-*---G[..G]:.522_:C 2.39 0.36 6.80 8.65 3.11 14 8 0 # 26 | C:.514_:[..A]A-**--U[..U]:.508_:C 4.70 1.02 23.66 7.03 6.75 15 47 9 # 27 x C:.515_:[..G]G-**+-C[..C]:.548_:C 3.71 0.60 7.42 9.03 4.92 18 55 1 # 28 + C:.519_:[..G]G-----C[..C]:.556_:C 0.13 0.06 38.93 8.90 -1.26 ##### Base-pair criteria used: 4.00 15.00 2.50 65.00 4.50 7.50 ##### 8 non-Watson-Crick base-pairs, and 3 helices (1 isolated bp) ##### Helix #1 (14): 1 - 14 ***broken O3'[i] to P[i+1] linkage*** ##### Helix #2 (13): 15 - 27 ***broken O3'[i] to P[i+1] linkage*** ##### Helix #3 (1): 28