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.

36 rows where group_code = "A" and tertiary_type = "3°: pseudoknot" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, CG, AU, GG, sequences, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

strength 5

conformation 4

molecule 2

tertiary_type 1

  • 3°: pseudoknot · 36 ✖

group_code 1

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 2 17 918 U:A cWW 3°: pseudoknot Strong A     98.6     1.4                       148 UA   0 1 0 0.0 0.0 0.0 0.0 0.99 1.0 2.0 1.93 0.0 0.56
16S 2 18 917 C:G cWW 3°: pseudoknot Strong A   99.3       0.7                       149 CG   1 0 0 0.0 0.0 0.0 0.0 0.99 1.0 1.94 1.96 0.0 0.56
16S 2 19 916 A:U cWW 3°: pseudoknot Strong A   100.0                               150 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 1.96 0.0 0.57
23S 6.1 61 93 C:G cWW 3°: pseudoknot Strong A 63.9 30.6                     2.8 2.8       36 GC,CG,GA,GG GC,CG 1 3 1 0.5 0.85 0.94 1.79 0.94 0.94 1.11 0.92 0.0 0.88
23S 6.1 62 92   cWW 3°: pseudoknot Strong A   94.4 2.8               2.8             36 CG,UA,CC CG,UA 1 2 1 0.67 0.5 0.97 1.47 0.97 0.97 1.82 1.64 0.0 0.88
23S 6.1 64 90 A:U cWW 3°: pseudoknot Significant A             100.0                     36 AA   0 0 0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 2.0 0.0 0.88
23S 6.1 65 89 U:A cWW 3°: pseudoknot Strong A 100.0                                 36 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.88
23S 6.1 66 88 C:G cWW 3°: pseudoknot Weak A   94.4 5.6                             36 CG,UA CG,UA 1 1 1 1.0 1.0 1.0 2.0 1.0 1.0 1.69 1.69 0.0 0.88
23S 6.2 67 74 U:A cWH 3°: pseudoknot Strong A 2.8   75.0 8.3 11.1                       2.8 36 GC,UA,AU,GU UA,GU 2 2 1 0.5 0.5 0.89 1.39 0.89 1.0 0.8 1.06 0.02 0.85
23S 19.1 317 334 G:C cWW 3°: pseudoknot Strong A 80.6     11.1             8.3             36 GC,AU,CC GC,AU 4 3 3 0.86 0.57 0.92 1.49 0.92 0.92 1.1 1.5 0.0 0.88
23S 19.1 318 333 C:G cWW 3°: pseudoknot Strong A 5.6 80.6 13.9                             36 GC,CG,UA GC,CG,UA 1 1 1 1.0 1.0 1.0 2.0 1.0 1.0 1.12 1.12 0.0 0.88
23S 22.1 413 2410 C:G cWW 3°: pseudoknot Strong A       100.0                           37 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.9
23S 22.1 414 2409 C:G cWW 3°: pseudoknot Strong A   37.8 35.1   5.4 18.9       2.7               37 CG,UA,GU,UG,CA CG,UA,GU 4 3 2 0.57 0.65 0.78 1.44 0.73 0.97 0.77 0.82 0.0 0.9
23S 22.1 415 2408 A:U cWW 3°: pseudoknot Strong A 18.9 56.8 13.5   2.7 5.4         2.7             37 GC,CG,UA,GU,UG,CC GC,CG,UA 4 4 3 0.75 0.75 0.89 1.64 0.89 0.97 0.62 0.64 0.0 0.9
23S 22.1 416 2407 U:A cWW 3°: pseudoknot Strong A 35.1 2.7 18.9 21.6 16.2     5.4                   37 GC,CG,UA,AU,GU,AC GC,CG,UA,AU 3 4 2 0.57 0.67 0.78 1.45 0.78 0.95 0.4 0.39 0.0 0.9
16S 18.1 505 526 G:C cWW 3°: pseudoknot Strong A 99.5                         0.5       205 GC   0 0 0 0.0 0.0 0.0 0.0 0.99 0.99 2.0 1.96 0.0 0.78
16S 18.1 506 525 G:C cWW 3°: pseudoknot Strong A 100.0                                 204 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.77
16S 18.1 507 524 C:G cWW 3°: pseudoknot Strong A   93.5       4.5     2.0                 201 CG,UG,AG   6 0 0 0.0 0.0 0.0 0.0 0.94 0.98 1.61 2.0 0.0 0.76
16S 18 521 528 G:C cWW 3°: pseudoknot No Support A 99.5                         0.5       203 GC   0 1 0 0.0 0.0 0.0 0.0 0.99 0.99 2.0 1.96 0.0 0.77
16S 18 522 527 C:G cWW 3°: pseudoknot Strong A   99.5       0.5                       200 CG   1 0 0 0.0 0.0 0.0 0.0 0.99 1.0 1.96 2.0 0.0 0.76
16S 19.1 571 865 U:A cWW 3°: pseudoknot Weak A     100.0                             220 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.83
23S 41.1 1005 1138 C:G cWW 3°: pseudoknot Strong A   100.0                               36 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.88
23S 41.1 1006 1137 C:G cWW 3°: pseudoknot Strong A   100.0                               36 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.88
23S 50.1 1343 1404 G:C cWW 3°: pseudoknot Strong A 97.6             2.4                   41 GC,AC   0 0 0 0.0 0.0 0.0 0.0 0.98 0.98 1.83 2.0 0.0 1.0
23S 50.1 1344 1403 U:A cWW 3°: pseudoknot Strong A   68.3 31.7                             41 CG,UA CG,UA 2 2 2 1.0 1.0 1.0 2.0 1.0 1.0 1.1 1.1 0.0 1.0
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong A                     17.1         82.9   41 CC,UU CC,UU 3 3 3 1.0 1.0 1.0 2.0 0.0 0.0 1.34 1.34 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 81.2 2283 2325 C:G cWW 3°: pseudoknot ??? A   100.0                               41 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 85.1 2326 2389 C:G cWW 3°: pseudoknot Strong A   82.9 4.9     12.2                       41 CG,UA,UG CG,UA 2 1 1 0.67 0.29 0.88 1.16 0.88 1.0 1.34 1.72 0.0 1.0
23S 85.1 2328 2387 A:U cWW 3°: pseudoknot Weak A       100.0                           41 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 85.1 2329 2386 U:A cWW 3°: pseudoknot Strong A 92.7     7.3                           41 GC,AU GC,AU 2 2 2 1.0 1.0 1.0 2.0 1.0 1.0 1.62 1.62 0.0 1.0
23S 85.1 2330 2385 G:C cWW 3°: pseudoknot Strong A 78.0     22.0                           41 GC,AU GC,AU 1 1 1 1.0 1.0 1.0 2.0 1.0 1.0 1.24 1.24 0.0 1.0
23S 86.1 2359 2428 C:G cWW 3°: pseudoknot Strong A     26.8       14.6     58.5               41 UA,AA,CA   3 0 0 0.0 0.0 0.0 0.0 0.27 0.27 0.63 2.0 0.0 1.0
23S 93.1 2626 2777 C:G cWW 3°: pseudoknot Strong A   12.2 85.4             2.4               41 CG,UA,CA CG,UA 2 2 2 1.0 0.83 0.98 1.81 0.98 0.98 1.4 1.47 0.0 1.0

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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;