Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C2p_endo anti A18 : C C2p_endo anti A19 : U C3p_endo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A19-A20 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward pairing A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A3-A28 : outward A6-A25 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 18 Number of adjacent stackings = 14 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A23-A24 : A-C O2P/Bh adjacent_5p upward pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C4p_exo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C3p_exo anti A17 : G C3p_exo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A9-A10 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A20-A21 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A27 : outward A6-A25 : outward A11-A21 : outward A14-A17 : outward Number of stackings = 17 Number of adjacent stackings = 13 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A7-A9 : C-U Ws/Hh pairing parallel cis one_hbond A7-A17 : C-G Hw/Hh pairing antiparallel cis one_hbond 116 A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A16-A17 : U-G O2'/Hh adjacent_5p pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C4p_exo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C3p_exo anti A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A11-A21 : outward A12-A20 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 17 Number of adjacent stackings = 13 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis 128 A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A7 : G-C O2'/Hh adjacent_5p pairing A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A7-A8 : C-U Ss/Hh adjacent_5p pairing parallel cis one_hbond A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A14-A16 : A-U Ss/O2P pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C3p_exo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A19-A20 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 19 Number of adjacent stackings = 15 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A7-A8 : C-U Ss/Hh adjacent_5p pairing parallel cis one_hbond A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A24-A26 : C-C O2P/Bh pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo syn A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C2p_endo anti A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A19-A20 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A3-A28 : outward A4-A27 : outward A6-A25 : outward A11-A21 : outward A14-A16 : upward A14-A17 : outward A17-A19 : upward Number of stackings = 20 Number of adjacent stackings = 13 Number of non adjacent stackings = 7 Base-pairs ------------------------------------------------------ A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C3p_exo anti A7 : C C3p_exo syn A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C3p_exo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A19-A20 : adjacent_5p upward A20-A21 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 19 Number of adjacent stackings = 15 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ws/Ww pairing antiparallel cis XXVIII A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A14-A18 : A-C O2'/Bh pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C4p_exo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C3p_exo anti A17 : G C3p_exo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward A28-A29 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 19 Number of adjacent stackings = 15 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A7-A9 : C-U Ws/Hh pairing parallel cis one_hbond A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A14-A18 : A-C O2'/Bh pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C3p_exo anti A18 : C C2p_endo anti A19 : U C3p_endo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward A28-A29 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 19 Number of adjacent stackings = 15 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis 128 A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ws/Ww pairing antiparallel cis XXVIII A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A14-A16 : A-U O2'/Ww Ss/O2' pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C4p_exo anti A11 : A C3p_endo anti A12 : A C4p_exo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C3p_exo anti A17 : G C2p_endo anti A18 : C C2p_endo anti A19 : U C3p_endo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A9-A10 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A12-A20 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 19 Number of adjacent stackings = 14 Number of non adjacent stackings = 5 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C2p_endo syn A16 : U C2p_endo anti A17 : G C3p_exo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C4p_exo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A7-A8 : adjacent_5p upward A8-A9 : adjacent_5p upward A9-A10 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A20-A21 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A28-A29 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 20 Number of adjacent stackings = 16 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ws/Wh pairing antiparallel cis one_hbond A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Wh pairing antiparallel cis one_hbond A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A13-A15 : C-G O2P/Ww O2P/Bs pairing A13-A17 : C-G Ww/Ww pairing antiparallel cis one_hbond Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C4p_exo anti A6 : G C2p_endo syn A7 : C C2p_endo anti A8 : U C4p_exo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C2p_endo anti A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A2-A29 : outward A3-A28 : outward A6-A25 : outward A10-A22 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 21 Number of adjacent stackings = 14 Number of non adjacent stackings = 7 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A7-A8 : C-U Ss/Hh adjacent_5p pairing parallel cis one_hbond A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C3p_exo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C2p_endo anti A18 : C C2p_endo anti A19 : U C3p_endo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A9-A10 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A19-A20 : adjacent_5p upward A20-A21 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 21 Number of adjacent stackings = 17 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ws/Ww pairing antiparallel cis XXVIII A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A8-A23 : U-A Ww/Ww pairing antiparallel cis one_hbond A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A14-A16 : A-U Ss/O2P pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C2p_endo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A20-A21 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward A28-A29 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A10-A22 : outward A11-A21 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 19 Number of adjacent stackings = 15 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A7 : G-C O2'/Hh adjacent_5p pairing A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Wh/Wh pairing antiparallel cis one_hbond A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A16-A18 : U-C O2P/Bh pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C2p_endo syn A16 : U C2p_endo anti A17 : G C2p_endo syn A18 : C C2p_endo anti A19 : U C3p_endo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A20-A21 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward A28-A29 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A6-A25 : outward A10-A22 : outward A11-A21 : outward A12-A20 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 22 Number of adjacent stackings = 16 Number of non adjacent stackings = 6 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis XIX A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A10-A21 : C-G Ww/Ww pairing antiparallel cis XIX A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX A14-A15 : A-G O2P/Bs adjacent_5p pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : A C3p_endo anti A4 : G C3p_endo anti A5 : U C3p_endo anti A6 : G C2p_endo anti A7 : C C2p_endo anti A8 : U C3p_endo anti A9 : U C3p_endo anti A10 : C C3p_endo anti A11 : A C3p_endo anti A12 : A C3p_endo anti A13 : C C3p_endo anti A14 : A C3p_endo anti A15 : G C3p_exo syn A16 : U C2p_endo anti A17 : G C3p_exo syn A18 : C C2p_endo anti A19 : U C4p_exo anti A20 : U C3p_endo anti A21 : G C3p_endo anti A22 : G C3p_endo anti A23 : A C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : C C3p_endo anti A27 : U C3p_endo anti A28 : C C3p_endo anti A29 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A11-A12 : adjacent_5p upward A12-A13 : adjacent_5p upward A19-A20 : adjacent_5p upward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A27-A28 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A2-A29 : outward A4-A27 : outward A6-A25 : outward A14-A17 : outward A17-A19 : upward Number of stackings = 18 Number of adjacent stackings = 13 Number of non adjacent stackings = 5 Base-pairs ------------------------------------------------------ A1-A29 : G-C Ww/Ww pairing antiparallel cis A2-A28 : G-C Ww/Ww pairing antiparallel cis XIX A3-A27 : A-U Ww/Ww pairing antiparallel cis XX A4-A26 : G-C Ww/Ww pairing antiparallel cis XIX A5-A25 : U-G Ww/Wh pairing antiparallel cis one_hbond A6-A24 : G-C Ww/Ww pairing antiparallel cis XIX A7-A8 : C-U Ss/Hh adjacent_5p pairing parallel cis one_hbond A8-A23 : U-A Ww/Ww pairing antiparallel cis XX A9-A22 : U-G Ws/Ww pairing antiparallel cis XXVIII A11-A20 : A-U Ww/Ww pairing antiparallel cis XX A12-A19 : A-U Ww/Ww pairing antiparallel cis XX A13-A17 : C-G Ww/Ww pairing antiparallel cis XIX