Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C2p_exo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C3p_endo anti A6 : A C4p_exo anti A7 : G C3p_endo anti A8 : A C3p_endo anti A9 : A C2p_exo anti A10 : A C2p_exo anti A11 : C C3p_endo anti A12 : A C4p_exo anti A13 : G C3p_endo anti A14 : C C3p_endo anti A15 : G C4p_exo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C1p_exo anti A20 : G C4p_exo syn A21 : G C3p_endo anti A22 : C C3p_endo anti A23 : G C3p_endo anti A24 : C C4p_exo anti A25 : G C3p_endo anti A26 : U O4p_endo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C2p_endo anti A30 : U C2p_endo anti A31 : U C3p_endo anti A32 : A C4p_exo anti A33 : C C3p_endo anti A34 : G C4p_exo anti A35 : C C3p_endo anti A36 : A C2p_exo anti A37 : C C2p_exo anti A38 : 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 A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A20-A21 : adjacent_5p outward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward pairing A27-A28 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A15-A23 : outward A17-A19 : upward Number of stackings = 25 Number of adjacent stackings = 22 Number of non adjacent stackings = 3 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A7-A8 : G-A O2'/C8 adjacent_5p pairing A7-A32 : G-A Ss/Hw pairing antiparallel trans one_hbond 63 A9-A29 : A-A Hw/Hh pairing parallel trans one_hbond A10-A27 : A-A Bh/Ss pairing antiparallel trans one_hbond 40 A11-A26 : C-U Wh/Ws pairing antiparallel cis one_hbond 100 A12-A25 : A-G Wh/Ss Ww/O2' pairing antiparallel trans one_hbond 63 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Bs/Ww pairing parallel trans one_hbond 87 A26-A27 : U-A O2'/C8 adjacent_5p upward pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C2p_exo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C4p_exo anti A6 : A C3p_endo anti A7 : G C2p_exo anti A8 : A C2p_exo anti A9 : A C4p_exo anti A10 : A C3p_endo anti A11 : C O4p_endo anti A12 : A O4p_endo anti A13 : G C3p_endo anti A14 : C C3p_endo anti A15 : G C4p_exo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C1p_exo anti A20 : G O4p_endo syn A21 : G C3p_endo anti A22 : C C3p_endo anti A23 : G C3p_endo anti A24 : C C4p_exo anti A25 : G C3p_endo anti A26 : U O4p_endo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C1p_exo anti A30 : U C2p_endo anti A31 : U C3p_endo anti A32 : A O4p_endo anti A33 : C C3p_endo anti A34 : G C3p_endo anti A35 : C C3p_endo anti A36 : A C2p_exo anti A37 : C C2p_exo anti A38 : 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 A5-A6 : adjacent_5p upward A6-A7 : 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 A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward pairing A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A8-A32 : outward A17-A19 : upward Number of stackings = 23 Number of adjacent stackings = 21 Number of non adjacent stackings = 2 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A7-A8 : G-A O2'/C8 adjacent_5p pairing A7-A32 : G-A Ss/Hh pairing antiparallel trans XI A8-A31 : A-U Bh/Ws pairing antiparallel trans one_hbond A10-A27 : A-A Wh/Ss pairing antiparallel trans one_hbond 40 A11-A26 : C-U Bh/Bs pairing antiparallel cis A12-A25 : A-G Wh/Ss pairing antiparallel cis one_hbond 63 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Ws/Ws pairing parallel trans one_hbond 87 A18-A20 : U-G O2'/Hh pairing A26-A27 : U-A O2'/C8 adjacent_5p upward pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : U C3p_endo anti A4 : G C2p_exo anti A5 : C C4p_exo anti A6 : A C4p_exo anti A7 : G C3p_endo anti A8 : A C3p_endo anti A9 : A C2p_exo anti A10 : A C3p_endo anti A11 : C C3p_endo anti A12 : A C3p_endo anti A13 : G C3p_endo anti A14 : C C3p_endo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C1p_exo anti A19 : C C3p_exo anti A20 : G C4p_exo syn A21 : G C2p_exo anti A22 : C C4p_exo anti A23 : G C3p_endo anti A24 : C C4p_exo anti A25 : G C3p_endo anti A26 : U C4p_exo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C2p_endo anti A30 : U C1p_exo anti A31 : U C3p_endo anti A32 : A O4p_endo anti A33 : C C3p_endo anti A34 : G C3p_endo anti A35 : C C3p_endo anti A36 : A C2p_exo anti A37 : C C3p_endo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A27-A28 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A8-A32 : outward A15-A23 : outward Number of stackings = 22 Number of adjacent stackings = 20 Number of non adjacent stackings = 2 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A6-A33 : A-C Ww/Wh pairing antiparallel cis one_hbond 71 A7-A8 : G-A O2'/C8 adjacent_5p pairing A7-A32 : G-A Ss/Hw pairing antiparallel trans XI A8-A31 : A-U Bh/Ws pairing antiparallel trans one_hbond A9-A28 : A-U Bh/O2' pairing A10-A27 : A-A Wh/Ss pairing antiparallel trans one_hbond 40 A11-A26 : C-U Wh/Ws pairing antiparallel cis one_hbond 100 A12-A25 : A-G Wh/Ss Ww/O2' pairing antiparallel trans one_hbond 63 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A18-A19 : U-C O2P/Bh adjacent_5p pairing Residue conformations ------------------------------------------- A1 : G C2p_exo anti A2 : G C3p_endo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C3p_endo anti A6 : A C2p_exo anti A7 : G C3p_endo anti A8 : A C3p_endo anti A9 : A C4p_exo anti A10 : A C3p_endo anti A11 : C C3p_endo anti A12 : A O4p_endo anti A13 : G C3p_endo anti A14 : C C2p_exo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C2p_exo anti A18 : U C2p_endo anti A19 : C C1p_exo anti A20 : G C4p_exo syn A21 : G C2p_exo anti A22 : C C3p_endo anti A23 : G C3p_endo anti A24 : C O4p_endo anti A25 : G C3p_endo anti A26 : U C4p_exo anti A27 : A C2p_exo anti A28 : U C3p_endo anti A29 : A C3p_exo anti A30 : U C2p_endo anti A31 : U C3p_endo anti A32 : A O4p_endo anti A33 : C C4p_exo anti A34 : G C3p_endo anti A35 : C C3p_endo anti A36 : A C3p_endo anti A37 : C C2p_exo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A20-A21 : adjacent_5p outward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward pairing A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A8-A32 : outward A15-A23 : outward A17-A19 : upward Number of stackings = 24 Number of adjacent stackings = 20 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A7-A32 : G-A Ss/Hh pairing antiparallel trans XI A8-A31 : A-U Hw/Ws pairing antiparallel trans one_hbond A9-A28 : A-U Ww/O2' Bh/O2' pairing A9-A29 : A-A Hh/Hh pairing parallel trans II A10-A27 : A-A Wh/Ss pairing antiparallel trans one_hbond 40 A11-A26 : C-U Bh/Bs pairing antiparallel cis A12-A25 : A-G Hh/Ss Bh/O2' pairing antiparallel trans XI A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Bs/Ww O2'/Ww pairing parallel trans 87 A18-A20 : U-G O2'/Hh pairing A26-A27 : U-A O2'/C8 adjacent_5p upward pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C3p_endo anti A6 : A C4p_exo anti A7 : G C2p_exo anti A8 : A C2p_exo anti A9 : A O4p_endo anti A10 : A C3p_endo anti A11 : C C3p_endo anti A12 : A C3p_endo anti A13 : G C2p_exo anti A14 : C C3p_endo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C3p_exo anti A20 : G O4p_endo syn A21 : G C2p_exo anti A22 : C C3p_endo anti A23 : G C3p_endo anti A24 : C C3p_endo anti A25 : G C3p_endo anti A26 : U O4p_endo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C3p_exo anti A30 : U C4p_endo anti A31 : U C3p_endo anti A32 : A O4p_endo anti A33 : C C3p_endo anti A34 : G C4p_exo anti A35 : C C2p_exo anti A36 : A C4p_exo anti A37 : C C3p_endo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A26-A27 : adjacent_5p upward A27-A28 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward A37-A38 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A15-A23 : outward Number of stackings = 22 Number of adjacent stackings = 20 Number of non adjacent stackings = 2 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A6-A33 : A-C Ww/Wh pairing antiparallel cis one_hbond 71 A7-A32 : G-A Ss/Bh pairing antiparallel trans one_hbond 63 A9-A29 : A-A Hw/Hh pairing parallel trans one_hbond A10-A27 : A-A Bh/Ss pairing antiparallel trans one_hbond 40 A11-A12 : C-A O2'/C8 adjacent_5p pairing A12-A25 : A-G Bh/Ss pairing antiparallel trans one_hbond 63 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Ws/Ws pairing parallel trans one_hbond 87 Residue conformations ------------------------------------------- A1 : G C2p_exo anti A2 : G C3p_endo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C4p_exo anti A6 : A C3p_endo anti A7 : G C3p_endo anti A8 : A C2p_exo anti A9 : A O4p_endo anti A10 : A C3p_endo anti A11 : C C2p_exo anti A12 : A C4p_exo anti A13 : G C3p_endo anti A14 : C C3p_endo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C2p_endo anti A20 : G O4p_endo syn A21 : G C2p_exo anti A22 : C C3p_endo anti A23 : G C3p_endo anti A24 : C O4p_endo anti A25 : G C3p_endo anti A26 : U C4p_exo anti A27 : A C4p_exo anti A28 : U C3p_endo anti A29 : A C3p_exo anti A30 : U C2p_endo anti A31 : U C3p_endo anti A32 : A C4p_exo anti A33 : C C3p_endo anti A34 : G C2p_exo anti A35 : C C3p_endo anti A36 : A C3p_endo anti A37 : C C2p_exo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A14-A15 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A20-A21 : adjacent_5p outward A21-A22 : adjacent_5p upward A22-A23 : adjacent_5p upward A23-A24 : adjacent_5p upward A25-A26 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A8-A32 : outward A15-A23 : outward A17-A19 : upward Number of stackings = 22 Number of adjacent stackings = 19 Number of non adjacent stackings = 3 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A6-A33 : A-C Ww/Wh pairing antiparallel cis one_hbond 71 A7-A32 : G-A Ss/Hh pairing antiparallel trans XI A8-A31 : A-U Hw/Ws pairing antiparallel trans one_hbond A9-A10 : A-A O2'/C8 adjacent_5p pairing A9-A28 : A-U Bh/O2' pairing A10-A27 : A-A Bh/Ss pairing antiparallel trans one_hbond 40 A11-A26 : C-U Wh/Ws pairing antiparallel cis one_hbond 100 A12-A25 : A-G Hw/Ss pairing antiparallel trans one_hbond A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Ws/Ws pairing parallel trans one_hbond 87 A27-A28 : A-U O2'/Hh adjacent_5p pairing Residue conformations ------------------------------------------- A1 : G C2p_exo anti A2 : G C4p_exo anti A3 : U C2p_exo anti A4 : G C2p_exo anti A5 : C C4p_exo anti A6 : A C2p_exo anti A7 : G C3p_endo anti A8 : A C3p_endo anti A9 : A C4p_exo anti A10 : A C3p_endo anti A11 : C C3p_endo anti A12 : A C4p_exo anti A13 : G C3p_endo anti A14 : C C3p_endo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C1p_exo anti A20 : G C4p_exo syn A21 : G C3p_endo anti A22 : C C3p_endo anti A23 : G C4p_exo anti A24 : C C4p_exo anti A25 : G C3p_endo anti A26 : U C4p_exo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C3p_exo anti A30 : U C1p_exo anti A31 : U C3p_endo anti A32 : A C4p_exo anti A33 : C C3p_endo anti A34 : G C3p_endo anti A35 : C C3p_endo anti A36 : A C2p_exo anti A37 : C C3p_endo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A20-A21 : adjacent_5p outward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A27-A28 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward A37-A38 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A8-A32 : outward A15-A23 : outward Number of stackings = 21 Number of adjacent stackings = 18 Number of non adjacent stackings = 3 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A7-A8 : G-A O2'/C8 adjacent_5p pairing A7-A32 : G-A Ss/Hw pairing antiparallel trans XI A8-A31 : A-U Hh/Ws pairing antiparallel trans XXIV A9-A29 : A-A Hh/Hh pairing parallel trans one_hbond A10-A27 : A-A Wh/Ss pairing antiparallel trans one_hbond 40 A12-A25 : A-G Hh/Ss pairing antiparallel trans XI A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Ws/Ws pairing parallel trans one_hbond 87 Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C2p_exo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C3p_endo anti A6 : A C4p_exo anti A7 : G C3p_endo anti A8 : A C3p_endo anti A9 : A C3p_endo anti A10 : A C3p_endo anti A11 : C O4p_endo anti A12 : A C3p_endo anti A13 : G C3p_endo anti A14 : C C3p_endo anti A15 : G C4p_exo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C1p_exo anti A20 : G O4p_endo syn A21 : G C2p_exo anti A22 : C C3p_endo anti A23 : G C3p_endo anti A24 : C C4p_exo anti A25 : G C3p_endo anti A26 : U C4p_exo anti A27 : A C4p_exo anti A28 : U C3p_endo anti A29 : A C1p_exo anti A30 : U C2p_endo anti A31 : U C4p_exo anti A32 : A C4p_exo anti A33 : C C2p_exo anti A34 : G C4p_exo anti A35 : C C3p_endo anti A36 : A C2p_exo anti A37 : C C4p_exo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A1-A2 : adjacent_5p upward A2-A3 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A20-A21 : adjacent_5p outward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A35-A36 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A8-A32 : outward A15-A23 : outward A17-A19 : upward Number of stackings = 25 Number of adjacent stackings = 21 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A6-A33 : A-C Ww/Bh pairing antiparallel cis one_hbond 71 A7-A8 : G-A O2'/C8 adjacent_5p pairing A7-A32 : G-A Ss/Hh pairing antiparallel trans XI A8-A31 : A-U Hh/Ws pairing antiparallel trans XXIV A9-A28 : A-U Wh/Ss Bh/O2' pairing antiparallel trans one_hbond A9-A29 : A-A Hh/Hh pairing parallel trans II A10-A27 : A-A Wh/Ss pairing antiparallel trans one_hbond 40 A11-A26 : C-U Wh/Ws pairing antiparallel cis one_hbond 100 A12-A25 : A-G Wh/Ss pairing antiparallel cis one_hbond 63 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A18-A20 : U-G O2'/Hh O2'/C8 pairing Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C3p_endo anti A3 : U C3p_endo anti A4 : G C3p_endo anti A5 : C C3p_endo anti A6 : A C4p_exo anti A7 : G C3p_endo anti A8 : A C2p_exo anti A9 : A O4p_endo anti A10 : A C3p_endo anti A11 : C C3p_endo anti A12 : A C4p_exo anti A13 : G C3p_endo anti A14 : C C2p_exo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C2p_exo anti A18 : U C3p_exo anti A19 : C C2p_endo anti A20 : G O4p_endo syn A21 : G C2p_exo anti A22 : C C3p_endo anti A23 : G C4p_exo anti A24 : C O4p_endo anti A25 : G C3p_endo anti A26 : U O4p_endo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C1p_endo anti A30 : U C2p_endo anti A31 : U C3p_endo anti A32 : A C4p_exo anti A33 : C C3p_endo anti A34 : G C2p_exo anti A35 : C C3p_endo anti A36 : A C3p_endo anti A37 : C C3p_endo anti A38 : C C3p_endo anti Adjacent stackings ---------------------------------------------- A2-A3 : adjacent_5p upward A3-A4 : adjacent_5p upward A4-A5 : adjacent_5p upward A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A35-A36 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A8-A32 : outward A15-A23 : outward A17-A19 : upward Number of stackings = 23 Number of adjacent stackings = 19 Number of non adjacent stackings = 4 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A7-A8 : G-A O2'/C8 adjacent_5p pairing A7-A32 : G-A Ss/Hh pairing antiparallel trans XI A8-A31 : A-U Bh/Ws pairing antiparallel trans one_hbond A9-A28 : A-U Wh/Ss pairing antiparallel trans one_hbond A9-A29 : A-A Hw/Hh pairing parallel trans one_hbond A10-A27 : A-A Bh/Ss pairing antiparallel trans one_hbond 40 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A17-A20 : U-G Ws/Ws pairing parallel trans one_hbond 87 Residue conformations ------------------------------------------- A1 : G C3p_endo anti A2 : G C2p_exo anti A3 : U C3p_endo anti A4 : G C4p_exo anti A5 : C C3p_endo anti A6 : A C4p_exo anti A7 : G C3p_endo anti A8 : A C3p_endo anti A9 : A O4p_endo anti A10 : A C3p_endo anti A11 : C C3p_endo anti A12 : A C4p_exo anti A13 : G C3p_endo anti A14 : C C2p_exo anti A15 : G C3p_endo anti A16 : C C3p_endo anti A17 : U C3p_endo anti A18 : U C2p_endo anti A19 : C C1p_exo anti A20 : G C4p_exo syn A21 : G C3p_endo anti A22 : C C3p_endo anti A23 : G C4p_exo anti A24 : C O4p_endo anti A25 : G C3p_endo anti A26 : U C4p_exo anti A27 : A C3p_endo anti A28 : U C3p_endo anti A29 : A C2p_endo anti A30 : U C2p_endo anti A31 : U C3p_endo anti A32 : A C4p_exo anti A33 : C C3p_endo anti A34 : G C3p_endo anti A35 : C C3p_endo anti A36 : A C2p_exo anti A37 : C C4p_exo anti A38 : 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 A5-A6 : adjacent_5p upward A6-A7 : adjacent_5p upward A8-A9 : adjacent_5p upward A10-A11 : adjacent_5p upward A12-A13 : adjacent_5p upward A13-A14 : adjacent_5p upward A15-A16 : adjacent_5p upward A16-A17 : adjacent_5p upward A21-A22 : adjacent_5p upward A23-A24 : adjacent_5p upward A24-A25 : adjacent_5p upward A25-A26 : adjacent_5p upward A26-A27 : adjacent_5p upward pairing A27-A28 : adjacent_5p upward A32-A33 : adjacent_5p upward A34-A35 : adjacent_5p upward A36-A37 : adjacent_5p upward Non-Adjacent stackings ------------------------------------------ A4-A36 : outward A6-A34 : outward A15-A23 : outward Number of stackings = 24 Number of adjacent stackings = 21 Number of non adjacent stackings = 3 Base-pairs ------------------------------------------------------ A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX A3-A36 : U-A Ww/Ww pairing antiparallel cis XX A4-A35 : G-C Ww/Ww pairing antiparallel cis XIX A5-A34 : C-G Ww/Ww pairing antiparallel cis XIX A6-A33 : A-C Ww/Wh pairing antiparallel cis one_hbond 71 A7-A32 : G-A Ss/Hh pairing antiparallel trans XI A8-A31 : A-U Hh/Ws pairing antiparallel trans XXIV A9-A28 : A-U Bh/O2' pairing A10-A27 : A-A Bh/Ss pairing antiparallel trans one_hbond 40 A12-A25 : A-G Wh/Ss Ww/O2' pairing antiparallel trans one_hbond 63 A13-A24 : G-C Ww/Ww pairing antiparallel cis XIX A14-A23 : C-G Ww/Ww pairing antiparallel cis XIX A15-A22 : G-C Ww/Ww pairing antiparallel cis XIX A16-A21 : C-G Ww/Ww pairing antiparallel cis XIX A26-A27 : U-A O2'/C8 adjacent_5p upward pairing