Base-pair statistics (frequencies and scores together) (view)

predominant_types
Base-pair types shown in bold in the published table (most frequent).
covarying_types
Base-pair types marked * in the published table (involved in a covariation).
sequences
Number of sequences in the group.

31 rows where conformation = "No BP" and group_code = "A" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, UA, UG, sequences, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

strength 5

tertiary_type 2

molecule 2

group_code 1

conformation 1

  • No BP · 31 ✖
molecule helix_number position_1 ▼ position_2 reference_base_pair conformation tertiary_type strength group_code GC CG UA AU GU UG AA AC AG CA CC CU GA GG UC UU gap sequences predominant_types covarying_types Xch Ych PE PES Cov1 Cov3 C1_C3 WC WCGU XCons YCons DfDel PNuc
16S 1 13 21 U:G No BP   Weak A           100.0                       154 UG   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 0.58
16S 15 375 388 U:G No BP   Weak A     2.2     95.6                     2.2 228 UA,UG   0 3 0 0.0 0.0 0.0 0.0 0.02 1.0 1.81 1.85 0.02 0.84
16S 20 582 758 C:C No BP 3°: base pair Strong A     1.8     94.9                 3.2     217 UG,UC   0 4 0 0.0 0.0 0.0 0.0 0.02 0.97 2.0 1.52 0.0 0.82
16S 21 606 632 G:U No BP   Weak A 5.2     2.2 47.0 4.3           0.4 0.9 3.9 4.3 31.0 0.9 232 GC,AU,GU,UG,GG,UC,UU GU,UC 3 14 0 0.0 0.08 0.0 0.08 0.07 0.59 0.86 1.0 0.01 0.87
23S 33 687 775 C:G No BP   Weak A   100.0                               37 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.9
23S 33 688 774 U:G No BP   Significant A     100.0                             37 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.9
23S 34 703 729 U:G No BP   Weak A   32.4       67.6                       37 CG,UG   3 0 0 0.0 0.0 0.0 0.0 0.32 1.0 1.09 2.0 0.0 0.9
16S 30 944 1237 G:C No BP   No Support A 99.5             0.5                   191 GC   0 0 0 0.0 0.0 0.0 0.0 0.99 0.99 1.96 2.0 0.0 0.72
16S 31 960 975 U:A No BP   Weak A           100.0                       208 UG   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 0.79
16S 31 961 974 U:A No BP   Weak A   3.3 3.3     78.5                   14.8   209 CG,UA,UG,UU   3 2 0 0.0 0.0 0.0 0.0 0.07 0.85 1.79 1.22 0.0 0.79
16S 34 1053 1205 G:U No BP   Weak A 1.0     0.5 98.5                         197 GU   0 1 0 0.0 0.0 0.0 0.0 0.01 1.0 1.96 1.92 0.0 0.75
16S 34 1064 1192 G:C No BP   Strong A 100.0                                 198 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.75
16S 40 1158 1178 C:G No BP   Weak A   99.5       0.5                       195 CG   1 0 0 0.0 0.0 0.0 0.0 0.99 1.0 1.95 2.0 0.0 0.74
16S 40 1159 1177 U:G No BP   Weak A   53.0       46.0           0.5       0.5   198 CG,UG CG,UU 7 1 0 0.0 0.01 0.0 0.01 0.53 0.99 1.0 1.92 0.0 0.75
23S 55 1420 1578 A:U No BP   Strong A 39.0     29.3 7.3                       24.4 41 GC,AU,GU GC,AU 3 3 3 1.0 0.8 0.9 1.7 0.9 1.0 -0.02 -0.04 0.0 0.76
16S 45 1506 1529 U:G No BP   Weak A           95.0                 5.0     80 UG,UC   0 1 0 0.0 0.0 0.0 0.0 0.0 0.95 2.0 1.71 0.0 0.3
23S 59 1527 1544 G:A No BP 3°: base pair Strong A         73.2                       26.8 41 GU   0 1 0 0.0 0.0 0.0 0.0 0.0 1.0 0.57 0.56 0.07 0.73
23S 66 1799 1820 G:U No BP   Weak A 90.2       9.8                         41 GC,GU   0 2 0 0.0 0.0 0.0 0.0 0.9 1.0 2.0 1.54 0.0 1.0
23S 69 1911 1919 U:A No BP   Weak A     100.0                             41 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 71 1935 1962 G:C No BP   Strong A 22.0 51.2     26.8                         41 GC,CG,GU CG,GU 1 1 0 0.0 0.55 0.78 1.33 0.73 1.0 1.0 0.52 0.0 1.0
23S 74 2075 2434 U:A No BP   Weak A     100.0                             41 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong A       4.9         12.2       82.9         41 AU,AG,GA AG,GA 3 3 3 1.0 0.71 0.95 1.67 0.05 0.05 1.34 1.19 0.0 1.0
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong A   29.3 48.8             17.1     4.9         41 CG,UA,CA,GA CG,UA 2 1 0 0.0 0.57 0.78 1.35 0.78 0.78 0.77 1.13 0.0 1.0
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong A 85.4     14.6                           41 GC,AU GC,AU 1 1 1 1.0 1.0 1.0 2.0 1.0 1.0 1.4 1.4 0.0 1.0
23S 80 2249 2255 U:G No BP   Weak A           100.0                       41 UG   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 1.0
23S 84 2296 2322 U:A No BP   Strong A     100.0                             41 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 90 2511 2577 U:A No BP   No Support A     100.0                             41 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 94 2637 2781 U:A No BP   Strong A     100.0                             41 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 98 2796 2800 U:A No BP   Strong A 30.0 2.5   5.0   5.0                     57.5 40 GC,CG,AU,UG GC,AU,UG 2 2 2 1.0 0.8 0.94 1.74 0.88 1.0 -0.69 -0.63 0.0 0.41
23S 99 2808 2891 G:U No BP 3°: base pair ??? A 7.9 2.6 2.6       2.6     36.8     13.2       34.3 38 GC,CG,UA,AA,CA,GA GC,CA 5 1 1 0.33 0.27 0.68 0.95 0.2 0.2 0.43 -0.11 0.32 0.61
23S 101 2849 2866 U:U No BP 3°: base pair Strong A     2.6     10.5                   78.9 7.9 38 UA,UG,UU   0 1 0 0.0 0.0 0.0 0.0 0.03 0.14 2.0 0.8 0.07 0.85

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CREATE VIEW basepair_combined as
select f.molecule, f.helix_number, f.position_1, f.position_2,
       f.reference_base_pair, f.conformation, f.tertiary_type, f.strength, f.group_code,
       f.GC, f.CG, f.UA, f.AU, f.GU, f.UG, f.AA, f.AC, f.AG, f.CA, f.CC, f.CU, f.GA, f.GG, f.UC, f.UU, f.gap, f.Seq as sequences,
       f.predominant_types, f.covarying_types,
       s.Xch, s.Ych, s.PE, s.PES, s.Cov1, s.Cov3, s."C1+C3" as C1_C3,
       s.WC, s.WCGU, s.XCons, s.YCons, s.DfDel, s.PNuc
from basepair_frequency f
left join basepair_collective_score s
  on s.molecule = f.molecule and s.position_1 = f.position_1
 and s.position_2 = f.position_2 and s.group_code = f.group_code;