Normal Purine-Pyrimidine Base Pairs
4 AC reverse Hoogsteen30 AC wobble48 AT reverse Hoogsteen
AC reverse Hoogsteen


AC wobble


AT reverse Hoogsteen


3 AU reverse Hoogsteen28 AU Watson-Crick1 CG Watson-Crick 2
AU reverse Hoogsteen


AU Watson-Crick


CG Watson-Crick 2


191 GU N3-imino; amino-4-carbonyl2 GU wobble
GU N3-imino; amino-4-carbonyl


GU wobble


Normal Purine-Purine and Pyrimidine-Pyrimidine Base Pairs
7 AA N7-amino345 AA sheared54 CC 2-carbonyl-amino(H1); N3-amino(H2)
AA N7-amino


AA sheared


CC 2-carbonyl-amino(H1); N3-amino(H2)


78 CC N3(+)-carbonyl, amino-N36 GA imino5 GA sheared
CC N3(+)-carbonyl, amino-N3


GA imino


GA sheared


8 GG N7-imino10 UC 4-carbonyl-amino9 UU imino-carbonyl
GG N7-imino


UC 4-carbonyl-amino


UU imino-carbonyl


42 UU imino-carbonyl
UU imino-carbonyl


Flipped Purine-Pyrimidine Mismatches
15 AC reverse wobble14 AU Hoogsteen43 AU reverse Watson-Crick
AC reverse wobble


AU Hoogsteen


AU reverse Watson-Crick


31 AU reverse Watson-Crick11 CG reverse Watson-Crick295 GC Hoogsteen
AU reverse Watson-Crick


CG reverse Watson-Crick


GC Hoogsteen


47 GC N3-amino, amino-N313 GC N3-amino, amino-N312 GU reverse wobble
GC N3-amino, amino-N3


GC N3-amino, amino-N3


GU reverse wobble


Flipped Purine-Purine Mismatches
16 AA N1-amino, symmetric17 AA N7-amino, symmetric22 AG N3-amino, amino-N1
AA N1-amino, symmetric


AA N7-amino, symmetric


AG N3-amino, amino-N1


21 GA N7-N1,amino carbonyl44 GA+ carbonyl-amino, N7-N120 GG N1-carbonyl, N7-amino
GA N7-N1,amino carbonyl


GA+ carbonyl-amino, N7-N1


GG N1-carbonyl, N7-amino


18 GG N1-carbonyl, symmetric19 GG N3-amino, symmetric
GG N1-carbonyl, symmetric


GG N3-amino, symmetric


Flipped Pyrimidine-Pyrimidine Mismatches
24 CC carbonyl-amino, symmetric23 CC N3-amino, symmetric27 UC 2-carbonyl-amino
CC carbonyl-amino, symmetric


CC N3-amino, symmetric


UC 2-carbonyl-amino


26 UU 2-carbonyl-imino, symmetric25 UU 4-carbonyl-imino, symmetric
UU 2-carbonyl-imino, symmetric


UU 4-carbonyl-imino, symmetric


Single Hydrogen Bond Mismatches
64 AA amino-N3 (1 bond)84 AA N1-amino (1 bond)41 AA N7-amino (1 bond)
AA amino-N3 (1 bond)


AA N1-amino (1 bond)


AA N7-amino (1 bond)


49 AC amino,2-carbonyl (1 bond)221 AC amino-N3 (1 bond)53 AC N1-amino (1 bond)
AC amino,2-carbonyl (1 bond)


AC amino-N3 (1 bond)


AC N1-amino (1 bond)


126 AC N3-amino (1 bond)144 AC N7-amino (1 bond)46 AU amino-2-carbonyl (1 bond)
AC N3-amino (1 bond)


AC N7-amino (1 bond)


AU amino-2-carbonyl (1 bond)


79 AU amino-4-carbonyl (1 bond)253 AU N1-imino (1 bond)286 AU N1-imino (1 bond)
AU amino-4-carbonyl (1 bond)


AU N1-imino (1 bond)


AU N1-imino (1 bond)


172 AU N3-imino (1 bond)215 AU N7-imino (1 bond)194 CC amino-N3 (1 bond)
AU N3-imino (1 bond)


AU N7-imino (1 bond)


CC amino-N3 (1 bond)


34 CC carbonyl-amino (1 bond)86 GA amino-N1 (1 bond)110 GA amino-N3 (1 bond)
CC carbonyl-amino (1 bond)


GA amino-N1 (1 bond)


GA amino-N3 (1 bond)


87 GA amino-N7 (1 bond)77 GA carbonyl-amino (1 bond)149 GA imino-N3 (1 bond)
GA amino-N7 (1 bond)


GA carbonyl-amino (1 bond)


GA imino-N3 (1 bond)


73 GA N3-amino (1 bond)145 GA N7-amino (1 bond)382 GC amino-carbonyl (1 bond)
GA N3-amino (1 bond)


GA N7-amino (1 bond)


GC amino-carbonyl (1 bond)


158 GC amino-carbonyl (1 bond)381 GC amino-carbonyl (1 bond)210 GC amino-N3 (1 bond)
GC amino-carbonyl (1 bond)


GC amino-carbonyl (1 bond)


GC amino-N3 (1 bond)


189 GC carbonyl-amino (1 bond)214 GC imino-carbonyl (1 bond)234 GC N3-amino (1 bond)
GC carbonyl-amino (1 bond)


GC imino-carbonyl (1 bond)


GC N3-amino (1 bond)


223 GC N7-amino (1 bond)83 GG amino-carbonyl (1 bond)231 GG amino-N7 (1 bond)
GC N7-amino (1 bond)


GG amino-carbonyl (1 bond)


GG amino-N7 (1 bond)


101 GG carbonyl-imino (1 bond)152 GG N3-amino (1 bond)256 GG N7-amino (1 bond)
GG carbonyl-imino (1 bond)


GG N3-amino (1 bond)


GG N7-amino (1 bond)


213 GU amino-2-carbonyl (1 bond)117 GU amino-4-carbonyl (1 bond)82 GU carbonyl-imino (1 bond)
GU amino-2-carbonyl (1 bond)


GU amino-4-carbonyl (1 bond)


GU carbonyl-imino (1 bond)


40 GU imino-2-carbonyl (1 bond)257 GU imino-4-carbonyl316 GU N7-imino (1 bond)
GU imino-2-carbonyl (1 bond)


GU imino-4-carbonyl


GU N7-imino (1 bond)


95 psiU imino-2-carbonyl (1 bond)45 UC 2-carbonyl-amino (1 bond)51 UC 4-carbonyl-amino (1 bond)
psiU imino-2-carbonyl (1 bond)


UC 2-carbonyl-amino (1 bond)


UC 4-carbonyl-amino (1 bond)


262 UC imino-carbonyl (1 bond)50 UU 2-carbonyl-imino (1 bond)32 UU imino-4-carbonyl (1 bond)
UC imino-carbonyl (1 bond)


UU 2-carbonyl-imino (1 bond)


UU imino-4-carbonyl (1 bond)


Trans Type (C-H)
206 AC C2-H-N3102 GA carbonyl-C2-H383 GG carbonyl:N7, amino (bifurcated)
AC C2-H-N3


GA carbonyl-C2-H


GG carbonyl:N7, amino (bifurcated)


378 GU amino:imino-2-carbonyl (bifurcated)72 UU 4-carbonyl-C5H, imino-4-carbonyl trans type232 UU imino-4-carbonyl, 2-carbonyl-C5-H
GU amino:imino-2-carbonyl (bifurcated)


UU 4-carbonyl-C5H, imino-4-carbonyl trans type


UU imino-4-carbonyl, 2-carbonyl-C5-H


Bifurcated Hydrogen Bond Mismatches
179 AC amino(A); N3(C)-carbonyl (bifurcated)315 GC imino:amino-carbonyl (bifurcated)74 GG imino:amino-carbonyl (bifurcated)
AC amino(A); N3(C)-carbonyl (bifurcated)


GC imino:amino-carbonyl (bifurcated)


GG imino:amino-carbonyl (bifurcated)


71 Gpsi imino-2-carbonyl, amino-2-carbonyl (bifurcated)192 GU imino:amino-2-carbonyl (bifurcated)52 GU imino:amino-4-carbonyl (bifurcated)
Gpsi imino-2-carbonyl, amino-2-carbonyl (bifurcated)


GU imino:amino-2-carbonyl (bifurcated)


GU imino:amino-4-carbonyl (bifurcated)


Triple Base Interactions
153 AAA amino-N1; N7-amino symmetric294 AAA amino-N3;N1-amino,amnio-N7245 AAA N1-amino, amino-N7 symmetric
AAA amino-N1; N7-amino symmetric


AAA amino-N3;N1-amino,amnio-N7


AAA N1-amino, amino-N7 symmetric


154 AAA N1-amino; N7-amino symmetric346 AAA sheared;N7-amino,symmetric363 AAC amino-N3; N1-amino, C2H-N3
AAA N1-amino; N7-amino symmetric


AAA sheared;N7-amino,symmetric


AAC amino-N3; N1-amino, C2H-N3


247 AAG amino-N1; sheared157 AAG amino-N7; N1-amino; amino-N3; N1-amino128 AAU amino-N1,N7-amino; Watson-Crick
AAG amino-N1; sheared


AAG amino-N7; N1-amino; amino-N3; N1-amino


AAU amino-N1,N7-amino; Watson-Crick


340 AAU amino-N3;Watson-Crick 62 AAU N1-amino symmetric; reverse Hoogsteen161 AAU N1-amino; reverse Hoogsteen
AAU amino-N3;Watson-Crick


AAU N1-amino symmetric; reverse Hoogsteen


AAU N1-amino; reverse Hoogsteen


94 AAU N1-imino,C2-2-carbonyl; Hoogsteen202 AAU N3-amino; N7-imino85 AAU N3-amino; reverse Hoogsteen
AAU N1-imino,C2-2-carbonyl; Hoogsteen


AAU N3-amino; N7-imino


AAU N3-amino; reverse Hoogsteen


55 AAU N3-amino; Watson-Crick69 AAU N7-amino symmetric; Watson-Circk75 AAU N7-amino symmetric; Watson-Crick
AAU N3-amino; Watson-Crick


AAU N7-amino symmetric; Watson-Circk


AAU N7-amino symmetric; Watson-Crick


135 AAU N7-amino, symmetric; reverse Watson-Crick319 ACA amino-carbonyl; amino-N1124 ACA amino-carbonyl; reverse Hoogsteen
AAU N7-amino, symmetric; reverse Watson-Crick


ACA amino-carbonyl; amino-N1


ACA amino-carbonyl; reverse Hoogsteen


91 ACG amino-carbonyl; Watson-Crick379 ACG C2H-carbonyl; Watson-Crick207 ACG N1-amino;Watson-Crick
ACG amino-carbonyl; Watson-Crick


ACG C2H-carbonyl; Watson-Crick


ACG N1-amino;Watson-Crick


81 ACG N3-amino(C); Watson-Crick348 ACG N3-amino;amino-carbonyl136 ACG N7-amino; Watson-Crick
ACG N3-amino(C); Watson-Crick


ACG N3-amino;amino-carbonyl


ACG N7-amino; Watson-Crick


380 ACU amino-carbonyl; amino-4-carbonyl, N3-imino151 AGA amino-carbonyl; carbonyl amino (bifurcated)90 AGC amino-N3, N1-amino; Watson-Crick
ACU amino-carbonyl; amino-4-carbonyl, N3-imino


AGA amino-carbonyl; carbonyl amino (bifurcated)


AGC amino-N3, N1-amino; Watson-Crick


242 AGC amino-N3; Watson-Crick288 AGC amino-N7; Watson-Crick104 AGC C2-H-amino; Waton-Crick
AGC amino-N3; Watson-Crick


AGC amino-N7; Watson-Crick


AGC C2-H-amino; Waton-Crick


96 AGC imino-N1, amino-carbonyl143 AGC N1-amino; Watson-Crick63 AGC N3-amino; Watson-Crick
AGC imino-N1, amino-carbonyl


AGC N1-amino; Watson-Crick


AGC N3-amino; Watson-Crick


99 AGC sheared; Watson-Crick246 AGG amino-carbonyl, N3-amino symmetric274 AGG amino-N3; amino-carbonyl
AGC sheared; Watson-Crick


AGG amino-carbonyl, N3-amino symmetric


AGG amino-N3; amino-carbonyl


229 AGG imino; carbonyl-N1, N7-amino147 AGG N1-amino; carbonyl-amino58 AGpsi amino-N7; wobble
AGG imino; carbonyl-N1, N7-amino


AGG N1-amino; carbonyl-amino


AGpsi amino-N7; wobble


178 AGU amino-N3; amino-2-carbonyl341 AGU N1-amino;Wobble148 AGU N3-amino; Reverse Wobble
AGU amino-N3; amino-2-carbonyl


AGU N1-amino;Wobble


AGU N3-amino; Reverse Wobble


195 AGU N3-amino; wobble248 AUA amino-2-carbonyl, reverse Hoogsteen (bifurcated)103 AUA amino-2-carbonyl,2-carbonyl-amino; N1-amino
AGU N3-amino; wobble


AUA amino-2-carbonyl, reverse Hoogsteen (bifurcated)


AUA amino-2-carbonyl,2-carbonyl-amino; N1-amino


107 AUA amino-2-carbonyl; Watson-Crick208 AUA amino-4-carbonyl, N7(A)-amino(A); Watson-Crick251 AUA amino-4-carbonyl; 2-carbonyl-amino; imino-N1
AUA amino-2-carbonyl; Watson-Crick


AUA amino-4-carbonyl, N7(A)-amino(A); Watson-Crick


AUA amino-4-carbonyl; 2-carbonyl-amino; imino-N1


61 AUA N1(+)-2-carbonyl; Watson-Crick238 AUA N7-imino; 2-carbonyl-amino211 AUC amino-O2; O4-amino
AUA N1(+)-2-carbonyl; Watson-Crick


AUA N7-imino; 2-carbonyl-amino


AUC amino-O2; O4-amino


243 AUU N7-imino; 4-carbonyl-imino, C5-H-2-carbonyl347 CAA amino-N3;N7-amino,amino-N192 CAC carbonyl-amino, amino-carbonyl
AUU N7-imino; 4-carbonyl-imino, C5-H-2-carbonyl


CAA amino-N3;N7-amino,amino-N1


CAC carbonyl-amino, amino-carbonyl


180 CAC N3-amino; amino-N3; amino-carbonyl321 CAG carbonyl-C2-H, sheared162 CAU amino-N1; reverse Watson-Crick
CAC N3-amino; amino-N3; amino-carbonyl


CAG carbonyl-C2-H, sheared


CAU amino-N1; reverse Watson-Crick


155 CAU amino-N3; Watson-Crick250 CAU N3-amino, amino-4-carbonyl182 CAU reverse Hoogsteen; Watson Crick
CAU amino-N3; Watson-Crick


CAU N3-amino, amino-4-carbonyl


CAU reverse Hoogsteen; Watson Crick


193 CAU reverse Hoogsteen; Watson-Crick121 CCA amino-carbonyl; reverse Hoogsteen123 CCC carbonyl-amino; amino-carbonyl
CAU reverse Hoogsteen; Watson-Crick


CCA amino-carbonyl; reverse Hoogsteen


CCC carbonyl-amino; amino-carbonyl


67 CCG amino-carbonyl(G), N3-amino(C); Watson-Crick120 CCG amino-carbonyl, Watson-Crick (bifurcated)364 CCG carbonyl-amino, N3-C5H; carbonyl-amino
CCG amino-carbonyl(G), N3-amino(C); Watson-Crick


CCG amino-carbonyl, Watson-Crick (bifurcated)


CCG carbonyl-amino, N3-C5H; carbonyl-amino


338 CCG carbonyl-amino, N3-CH5; N3-amino, symmetric237 CCG carbonyl-amino; Watson-Crick197 CCU carbonyl-amino; amino-4-carbonyl; N3-imino
CCG carbonyl-amino, N3-CH5; N3-amino, symmetric


CCG carbonyl-amino; Watson-Crick


CCU carbonyl-amino; amino-4-carbonyl; N3-imino


259 CGC amino-carbonyl, Watson-Crick (bifurcated)60 CGC amino-carbonyl,N3(+)-N7; Watson-Crick112 CGC amino-carbonyl; Watson-Crick; carbonyl-amino(CC)
CGC amino-carbonyl, Watson-Crick (bifurcated)


CGC amino-carbonyl,N3(+)-N7; Watson-Crick


CGC amino-carbonyl; Watson-Crick; carbonyl-amino(CC)


291 CGC amino-carbonyl;Watson-Crick258 CGC amino-N3; imino-N3, amino-carbonyl; Watson-Crick111 CGC amino-N3; N3-amino; Watson-Crick
CGC amino-carbonyl;Watson-Crick


CGC amino-N3; imino-N3, amino-carbonyl; Watson-Crick


CGC amino-N3; N3-amino; Watson-Crick


299 CGC amino-N7; Watson-Crick358 CGC amino-N7;Watson-Crick287 CGC carbonyl-amino;Watson-Crick
CGC amino-N7; Watson-Crick


CGC amino-N7;Watson-Crick


CGC carbonyl-amino;Watson-Crick


273 CGG amino-carbonyl; N3-amino symmetric269 CGG N3-amino, amino-carbonyl190 CGU carbonyl-amino; Wobble
CGG amino-carbonyl; N3-amino symmetric


CGG N3-amino, amino-carbonyl


CGU carbonyl-amino; Wobble


300 CGU N3-amino,amino-N3;wobble220 CUA amino-2-carbonyl; Watson-Crick241 CUA amino-4-carbonyl; Watson-Crick
CGU N3-amino,amino-N3;wobble


CUA amino-2-carbonyl; Watson-Crick


CUA amino-4-carbonyl; Watson-Crick


113 CUG amino-2-carbonyl; imino-carbonyl268 CUG N3-imino, 2-carbonyl-imino218 CUU carbonyl-imino; 2-carbonyl-imino
CUG amino-2-carbonyl; imino-carbonyl


CUG N3-imino, 2-carbonyl-imino


CUU carbonyl-imino; 2-carbonyl-imino


89 DGC imino-N3, 2-carbonyl-amino; reverse Watson-Crick325 GAA amino-N1; N3-amino183 GAA amino-N1; N7-amino
DGC imino-N3, 2-carbonyl-amino; reverse Watson-Crick


GAA amino-N1; N3-amino


GAA amino-N1; N7-amino


132 GAA amino-N3; amino-N3159 GAA amino-N3; N7-amino symmetric277 GAA amino-N3;amino-N1
GAA amino-N3; amino-N3


GAA amino-N3; N7-amino symmetric


GAA amino-N3;amino-N1


343 GAA imino-N3;N7-amino160 GAA sheared; N1-amino symmetric196 GAC amino-N1; N7-amino
GAA imino-N3;N7-amino


GAA sheared; N1-amino symmetric


GAC amino-N1; N7-amino


289 GAC amino-N7; amino-N3174 GAG amino-N1; sheared186 GAG amino-N3; N7-amino
GAC amino-N7; amino-N3


GAG amino-N1; sheared


GAG amino-N3; N7-amino


187 GAG amino-N3; sheared181 GAG amino-N7; N3-amino226 GAG carbonyl-amino; imino
GAG amino-N3; sheared


GAG amino-N7; N3-amino


GAG carbonyl-amino; imino


279 GAU amino-N1, N3-amino; reverse Hoogsteen276 GAU amino-N1, N3-C2-H; reverse Hoogsteen188 GAU amino-N1; amino-2-carbonyl
GAU amino-N1, N3-amino; reverse Hoogsteen


GAU amino-N1, N3-C2-H; reverse Hoogsteen


GAU amino-N1; amino-2-carbonyl


235 GAU amino-N1; reverse Hoogsteen244 GAU amino-N3; Hoogsteen203 GAU amino-N3; reverse Hoogsteen
GAU amino-N1; reverse Hoogsteen


GAU amino-N3; Hoogsteen


GAU amino-N3; reverse Hoogsteen


138 GAU amino-N3; Watson-Crick185 GAU amino-N7; reverse Watson-Crick217 GCA amino-carbonyl; reverse wobble; carbonyl(G)-amino(A)
GAU amino-N3; Watson-Crick


GAU amino-N7; reverse Watson-Crick


GCA amino-carbonyl; reverse wobble; carbonyl(G)-amino(A)


118 GCA reverse Watson-Crick; amino-N7142 GCG amino-carbonyl; Watson-Crick166 GCG carbonyl-amino; Watson-Crick
GCA reverse Watson-Crick; amino-N7


GCG amino-carbonyl; Watson-Crick


GCG carbonyl-amino; Watson-Crick


109 GCU imino; amino-carbonyl (bifurcated); amino-4-carbonyl298 GGA amino-carbonyl;imino261 GGA carbonyl-amino(A), imino-carbonyl, amino-N7; imino
GCU imino; amino-carbonyl (bifurcated); amino-4-carbonyl


GGA amino-carbonyl;imino


GGA carbonyl-amino(A), imino-carbonyl, amino-N7; imino


88 GGA N7-imino, carbonyl-amino; N3-amino,amino-N766 GGC amino(N2)-N7, imino-carbonyl, carbonyl-amino(N4); Watson-Crick100 GGC amino-carbonyl(G), N3-amino(C); Watson-Crick
GGA N7-imino, carbonyl-amino; N3-amino,amino-N7


GGC amino(N2)-N7, imino-carbonyl, carbonyl-amino(N4); Watson-Crick


GGC amino-carbonyl(G), N3-amino(C); Watson-Crick


68 GGC amino-carbonyl; Watson-Crick165 GGC amino-N3; Watson-Crick293 GGC amino-N7, amino-carbonyl; Watson-Crick
GGC amino-carbonyl; Watson-Crick


GGC amino-N3; Watson-Crick


GGC amino-N7, amino-carbonyl; Watson-Crick


108 GGC amino-N7, amino-carbonyl; Watson-Crick; N3-amino270 GGC amino-N7, imino-carbonyl; carbonyl-amino(C); Watson-Crick240 GGC amino-N7; Watson-Crick
GGC amino-N7, amino-carbonyl; Watson-Crick; N3-amino


GGC amino-N7, imino-carbonyl; carbonyl-amino(C); Watson-Crick


GGC amino-N7; Watson-Crick


275 GGC amino-N7; Watson-Crick230 GGC carbonyl-amino(C), imino-carbonyl(G), amino(G)-N7(G); Watson-Crick168 GGC carbonyl-amino; Watson-Crick
GGC amino-N7; Watson-Crick


GGC carbonyl-amino(C), imino-carbonyl(G), amino(G)-N7(G); Watson-Crick


GGC carbonyl-amino; Watson-Crick


114 GGC carbonyl-amino; Watson-Crick320 GGC carbonyl-imino; amino-N3, N3-amino70 GGC imino-N7, amino-carbonyl; Watson-Crick
GGC carbonyl-amino; Watson-Crick


GGC carbonyl-imino; amino-N3, N3-amino


GGC imino-N7, amino-carbonyl; Watson-Crick


139 GGC N3(G)-amino(G); amino(G)-carbonyl(C); Watson-Crick200 GGC N3-amino symmetric; Watson-Crick326 GGG amino-N7; N3-amino, symmetric
GGC N3(G)-amino(G); amino(G)-carbonyl(C); Watson-Crick


GGC N3-amino symmetric; Watson-Crick


GGG amino-N7; N3-amino, symmetric


57 GGU amino(H1)-carbonyl, amino(H2)-N7; wobble272 GGU carbonyl-amino; Wobble384 GUA amino-2-carbonyl; reverse Hoogsteen
GGU amino(H1)-carbonyl, amino(H2)-N7; wobble


GGU carbonyl-amino; Wobble


GUA amino-2-carbonyl; reverse Hoogsteen


125 GUA amino-2-carbonyl; Watson-Crick59 GUA amino-4-carbonyl; reverse Hoogsteen150 GUA amino-4-carbonyl; Watson-Crick
GUA amino-2-carbonyl; Watson-Crick


GUA amino-4-carbonyl; reverse Hoogsteen


GUA amino-4-carbonyl; Watson-Crick


212 GUA imino-O4; O2-amino352 GUA imino:amino-4-carbonyl (bifurcated); Watson-Crick204 GUG amino-4-carbonyl; wobble
GUA imino-O4; O2-amino


GUA imino:amino-4-carbonyl (bifurcated); Watson-Crick


GUG amino-4-carbonyl; wobble


65 GUU amino-4-carbonyl (bifurcated); imino-carbonyl236 GUU amino-4-carbonyl, N3-imino; 4-carbonyl-imino, C5-H-4-carbonyl131 UAA 2-carbonyl-amino; N1-amino
GUU amino-4-carbonyl (bifurcated); imino-carbonyl


GUU amino-4-carbonyl, N3-imino; 4-carbonyl-imino, C5-H-4-carbonyl


UAA 2-carbonyl-amino; N1-amino


372 UAA Hoogsteen; amino-N3, 4-carbonyl-C2H175 UAA imino-N1; 2-carbonyl-amino170 UAG carbonyl-amino; N3-amino
UAA Hoogsteen; amino-N3, 4-carbonyl-C2H


UAA imino-N1; 2-carbonyl-amino


UAG carbonyl-amino; N3-amino


290 UAG Hoogsteen; imino173 UAG imino-N3; N1-amino; amino-N3119 UAU 2-carbonyl-amino, Watson-Crick
UAG Hoogsteen; imino


UAG imino-N3; N1-amino; amino-N3


UAU 2-carbonyl-amino, Watson-Crick


56 UAU Hoogsteen; Watson-Crick375 UAU imino-N3, Watson-Crick308 UAU imino-N3; Watson-Crick
UAU Hoogsteen; Watson-Crick


UAU imino-N3, Watson-Crick


UAU imino-N3; Watson-Crick


324 UAU reverse Hoogsteen; reverse Watson-Crick171 UAU reverse Hoogsteen; Watson-Crick97 UCA carbonyl-amino; carbonyl-amino
UAU reverse Hoogsteen; reverse Watson-Crick


UAU reverse Hoogsteen; Watson-Crick


UCA carbonyl-amino; carbonyl-amino


271 UCA imino-2-carbonyl; reverse Hoogsteen; 2-carbonyl(U)-amino(A)176 UCG 2-carbonyl-amino; Watson-Crick255 UCG 4-carbonyl-amino; Watson-Crick
UCA imino-2-carbonyl; reverse Hoogsteen; 2-carbonyl(U)-amino(A)


UCG 2-carbonyl-amino; Watson-Crick


UCG 4-carbonyl-amino; Watson-Crick


133 UCG imino-carbonyl; Watson-Crick146 UCU 4-carbonyl-amino; amino-4-carbonyl292 UGA 2-carbonyl-amino; imino
UCG imino-carbonyl; Watson-Crick


UCU 4-carbonyl-amino; amino-4-carbonyl


UGA 2-carbonyl-amino; imino


140 UGA 2-carbonyl-imino; sheared322 UGA 2-carbonyl-imino; sheared209 UGC 2-carbonyl-amino; Watson-Crick
UGA 2-carbonyl-imino; sheared


UGA 2-carbonyl-imino; sheared


UGC 2-carbonyl-amino; Watson-Crick


98 UGC 4-carbonyl-amino; Watson-Crick342 UGC imino-carbonyl, 2-carbonyl-amino; Watson-Crick351 UGC imino-carbonyl, 2-carbonyl-N7+; Watson-Crick
UGC 4-carbonyl-amino; Watson-Crick


UGC imino-carbonyl, 2-carbonyl-amino; Watson-Crick


UGC imino-carbonyl, 2-carbonyl-N7+; Watson-Crick


167 UGC imino-N7; Watson-Crick344 UGG 4-carbonyl-amino;N7-amino164 UGU 4-carbonyl-amino; amino(G)-N3; imino-4-carbonyl
UGC imino-N7; Watson-Crick


UGG 4-carbonyl-amino;N7-amino


UGU 4-carbonyl-amino; amino(G)-N3; imino-4-carbonyl


184 UGU 4-carbonyl-amino; Watson-Crick239 UUA imino-2-carbonyl; Watson-Crick80 UUA imino-4-carbonyl, 2-carbonyl-amino; Hoogsteen
UGU 4-carbonyl-amino; Watson-Crick


UUA imino-2-carbonyl; Watson-Crick


UUA imino-4-carbonyl, 2-carbonyl-amino; Hoogsteen


318 UUA imino-4-carbonyl, 2-carbonyl-C5-H; Hoogsteen296 UUA imino-4-carbonyl, 2-carbonyl-C5-H; Watson-Crick219 UUC carbonyl-C6-H; 4-carbonyl-amino
UUA imino-4-carbonyl, 2-carbonyl-C5-H; Hoogsteen


UUA imino-4-carbonyl, 2-carbonyl-C5-H; Watson-Crick


UUC carbonyl-C6-H; 4-carbonyl-amino


314 UUG 4-carbonyl-imino; 2-carbonyl-amino:amino (bifurcated)156 UUG imino-2-carbonyl; 2-carbonyl-amino285 UUG imino-4-carbonyl; 2-carbonyl-amino
UUG 4-carbonyl-imino; 2-carbonyl-amino:amino (bifurcated)


UUG imino-2-carbonyl; 2-carbonyl-amino


UUG imino-4-carbonyl; 2-carbonyl-amino


201 UUG imino-4-carbonyl; wobble129 UUU 4-carbonyl-imino; 2-carbonyl-imino
UUG imino-4-carbonyl; wobble


UUU 4-carbonyl-imino; 2-carbonyl-imino


Quadruple Base Interactions
360 AAAU N7-amino, symmetric; C2H-N3; Watson-Crick373 AAGC amino-N3, C2H-6-carbonyl; Watson-Crick309 AAGC C2-H-N7, N3-amino; Watson-Crick
AAAU N7-amino, symmetric; C2H-N3; Watson-Crick


AAGC amino-N3, C2H-6-carbonyl; Watson-Crick


AAGC C2-H-N7, N3-amino; Watson-Crick


377 AAGC N1-amino, amino-N7; amino-N3, N1-amino; Watson-Crick311 AAGC N1-amino,amino-N7; N3-amino;Watson-Crick303 AAGC N7-amino,symmetric;Watson-Crick
AAGC N1-amino, amino-N7; amino-N3, N1-amino; Watson-Crick


AAGC N1-amino,amino-N7; N3-amino;Watson-Crick


AAGC N7-amino,symmetric;Watson-Crick


367 AAGU N7-amino, symmetric; N1-maino; wobble305 ACAU amino-carbonyl;reverese Hoogsteen; Watson-Crick93 ACGC amino-carbonyl, amino(C)-N7(G):N3(+)C-carbonyl(G): carbonyl(C)-amino(C); Watson-Crick
AAGU N7-amino, symmetric; N1-maino; wobble


ACAU amino-carbonyl;reverese Hoogsteen; Watson-Crick


ACGC amino-carbonyl, amino(C)-N7(G):N3(+)C-carbonyl(G): carbonyl(C)-amino(C); Watson-Crick


304 AGCU N1-amino;Watson-Crick;amino-2-carbonyl362 AGGC N7-amino; carbonyl-amino; Watson-Crick370 AUAU C2H-2-carbonyl; Watson-Crick; Hoogsteen
AGCU N1-amino;Watson-Crick;amino-2-carbonyl


AGGC N7-amino; carbonyl-amino; Watson-Crick


AUAU C2H-2-carbonyl; Watson-Crick; Hoogsteen


376 AUGC reverse Hoosteen, 2-carbonyl-amino; Watson-Crick349 CAGA amino-N3; amino-N3, N1-amino;amino(A)-N1(A), N7(A)-amino(A)361 CAGC carbonyl-amino; N3-amino; Watson-Crick
AUGC reverse Hoosteen, 2-carbonyl-amino; Watson-Crick


CAGA amino-N3; amino-N3, N1-amino;amino(A)-N1(A), N7(A)-amino(A)


CAGC carbonyl-amino; N3-amino; Watson-Crick


357 CAGC reverse Hoogsteen;N3-amino, Watson-Crick312 CCAU amino-carbonyl; reverse Hoogsteen; Watson-Crick339 CCGU N3-CH5, carbonyl-amino; amino-N3, symmetric; wobble
CAGC reverse Hoogsteen;N3-amino, Watson-Crick


CCAU amino-carbonyl; reverse Hoogsteen; Watson-Crick


CCGU N3-CH5, carbonyl-amino; amino-N3, symmetric; wobble


350 CGC amino-N3;Watson-Crick278 CGGC Watson-Crick; carbonyl-amino; Watsn-Crick; amino-carbonyl307 GAGC amino-N7; N3-amino; Watson-Crick
CGC amino-N3;Watson-Crick


CGGC Watson-Crick; carbonyl-amino; Watsn-Crick; amino-carbonyl


GAGC amino-N7; N3-amino; Watson-Crick


306 GAGC amino-N7; N3-amino; Watson-Crick301 GAGC sheared, N3-amino;Watson-Crick353 GCAA carbonyl-amino; amino-N3;amino-N1, N7-amino
GAGC amino-N7; N3-amino; Watson-Crick


GAGC sheared, N3-amino;Watson-Crick


GCAA carbonyl-amino; amino-N3;amino-N1, N7-amino


323 GGCA amino-N7; Watson-Crick; N3(G)-amino(A), amino(G)-N1(A)106 GGCA imino-N7, carbonyl-amino; Watson-Crick; N3-amino(G), amino-N1(G)327 GGGC amino-N7; N3-amino, symmetric; Watson-Crick
GGCA amino-N7; Watson-Crick; N3(G)-amino(A), amino(G)-N1(A)


GGCA imino-N7, carbonyl-amino; Watson-Crick; N3-amino(G), amino-N1(G)


GGGC amino-N7; N3-amino, symmetric; Watson-Crick


371 GUAU amino-2-carbonyl; Watson-Crick; Hoogsteen317 GUAU amino-4-carbonyl; reverse Hoogsteen; reverse Watson-Crick359 UAAU Hoogsteen; C2H-N3; Watson-Crick
GUAU amino-2-carbonyl; Watson-Crick; Hoogsteen


GUAU amino-4-carbonyl; reverse Hoogsteen; reverse Watson-Crick


UAAU Hoogsteen; C2H-N3; Watson-Crick


328 UAAU reverse Hoogsteen; amino-N3; Watson-Crick355 UACG reverse Hoogsteen;C2H-carbonyl;Watson-Crick302 UAGC 2-carbonyl-amino;amino-N3;Watson-Crick
UAAU reverse Hoogsteen; amino-N3; Watson-Crick


UACG reverse Hoogsteen;C2H-carbonyl;Watson-Crick


UAGC 2-carbonyl-amino;amino-N3;Watson-Crick


354 UAGC reverse Hoogsteen; C2H-N3; Watson-Crick313 UAGC reverse Hoogsteen; N1-amino; Watson-Crick310 UAGC reverse Hoogsteen; N3-amino; Watson-Crick
UAGC reverse Hoogsteen; C2H-N3; Watson-Crick


UAGC reverse Hoogsteen; N1-amino; Watson-Crick


UAGC reverse Hoogsteen; N3-amino; Watson-Crick


365 UAGC reverse Watson-Crick; Sheared; Watson-Crick374 UUAU imino-4-carbonyl, imino-N3, Watson-Crick385 UUGC imino-4-carbonyl; imino-N3, 2-carbonyl-amino; Watson-Crick
UAGC reverse Watson-Crick; Sheared; Watson-Crick


UUAU imino-4-carbonyl, imino-N3, Watson-Crick


UUGC imino-4-carbonyl; imino-N3, 2-carbonyl-amino; Watson-Crick


329 AUAAU amino-2-carbonyl; Watson-Crick;N3-amino; reverse Hoogsteen356 GAG(U)C amino-N7;N3-amino,C2H-N3;N7-imino;Watson-Crick369 GCA(G)A carbonyl-amino; N3-amino; N1-amino(G), amino-N3(G); N7-amino, amino-N1
AUAAU amino-2-carbonyl; Watson-Crick;N3-amino; reverse Hoogsteen


GAG(U)C amino-N7;N3-amino,C2H-N3;N7-imino;Watson-Crick


GCA(G)A carbonyl-amino; N3-amino; N1-amino(G), amino-N3(G); N7-amino, amino-N1


368 GCA(G)C carbonyl-amino; N3-amino; N1-amino(G), amino-N3(G); reverse Hoogsteen
GCA(G)C carbonyl-amino; N3-amino; N1-amino(G), amino-N3(G); reverse Hoogsteen


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