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 = "M" and tertiary_type = "3°: pseudoknot" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, CG, UA, AU, GU, UG, AC, AG, CA, CC, CU, GA, GG, UC, UU, gap, sequences, predominant_types, covarying_types, Xch, Ych, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, 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 M   0.4 97.3 0.4   0.1 0.3     0.1     0.1 0.1 0.3 0.3 0.3 672 UA CG,UA,AU 10 10 6 0.6 0.38 0.98 1.36 0.98 0.99 1.82 1.83 0.0 0.58
16S 2 18 917 C:G cWW 3°: pseudoknot Strong M 3.4 90.1 4.7 0.1   0.1 0.1   0.6 0.1     0.1     0.1 0.3 675 GC,CG,UA GC,CG,UA,AU 16 17 10 0.61 0.86 0.99 1.85 0.99 0.99 1.39 1.35 0.0 0.58
16S 2 19 916 A:U cWW 3°: pseudoknot Strong M 0.4 90.7 4.4 1.9   0.1 0.3   0.4 0.9   0.1   0.3     0.3 676 CG,UA GC,CG,UA,AU 12 13 5 0.4 0.75 0.98 1.73 0.98 0.98 1.46 1.52 0.0 0.58
23S 6.1 61 93 C:G cWW 3°: pseudoknot Strong M     0.4 0.9     1.3   0.9   0.4   0.9 0.9 0.4 2.6 91.5 233 UU AA,CC,GG,UU 9 6 5 0.67 0.43 0.6 1.03 0.15 0.15 -0.55 -0.5 0.02 0.06
23S 6.1 62 92   cWW 3°: pseudoknot Strong M   0.4 0.9 2.1 0.4 1.3 2.1       0.9 0.9 0.4 0.4   2.1 88.0 233 AU,AA,UU AU,UG,CC,GA 9 6 3 0.4 0.35 0.46 0.81 0.29 0.43 -0.59 -0.53 0.02 0.09
23S 6.1 64 90 A:U cWW 3°: pseudoknot Significant M   0.4 0.4 2.1 0.4   0.4 0.4 1.7   0.9 0.9 1.3     1.3 89.7 233 AU AU,CC,GA 6 6 2 0.33 0.26 0.42 0.68 0.29 0.33 -0.57 -0.5 0.03 0.08
23S 6.1 65 89 U:A cWW 3°: pseudoknot Strong M 0.4 0.4 0.4 1.3     0.4 0.4 1.3 0.4     2.6       92.1 233 GA AG,GA 6 4 2 0.4 0.25 0.5 0.75 0.33 0.33 -0.49 -0.46 0.01 0.06
23S 6.1 66 88 C:G cWW 3°: pseudoknot Weak M 0.4   0.9 1.7 0.4       2.6   0.4   0.9     0.9 91.7 233 AG UA,GU,AG,CC 3 4 1 0.29 0.39 0.58 0.96 0.37 0.42 -0.48 -0.47 0.02 0.06
23S 6.2 67 74 U:A cWH 3°: pseudoknot Strong M 1.3   2.6 3.0 0.4   1.7 0.4 0.4 0.4   1.3 1.7 1.7   0.9 84.1 233 UA,AU UA,AU,GG 8 6 2 0.29 0.33 0.46 0.79 0.43 0.46 -0.61 -0.62 0.0 0.12
23S 19.1 317 334 G:C cWW 3°: pseudoknot Strong M 5.9     4.3 1.2                     0.4 88.2 254 GC,AU GC,AU 4 5 5 1.0 0.73 0.87 1.6 0.87 0.97 -0.44 -0.41 0.0 0.1
23S 19.1 318 333 C:G cWW 3°: pseudoknot Strong M   9.8 0.4 0.8   0.4 0.8                   87.8 254 CG CG,UA,AU 4 3 3 0.86 0.33 0.87 1.2 0.9 0.94 -0.4 -0.39 0.0 0.1
23S 22.1 413 2410 C:G cWW 3°: pseudoknot Strong M   12.2 1.6 0.4     0.8       0.4 0.4         84.2 254 CG CG,UA,AU 4 42 3 0.13 0.56 0.9 1.46 0.9 0.9 -0.45 -0.04 0.63 0.13
23S 22.1 414 2409 C:G cWW 3°: pseudoknot Strong M   13.0 0.8 0.4   0.8   0.4 0.4               84.2 254 CG CG,UA,AU 6 28 3 0.18 0.43 0.9 1.33 0.9 0.95 -0.46 -0.66 0.46 0.13
23S 22.1 415 2408 A:U cWW 3°: pseudoknot Strong M     2.8 13.0                         84.3 254 UA,AU UA,AU 2 7 2 0.44 1.0 1.0 2.0 1.0 1.0 -0.42 -0.75 0.11 0.13
23S 22.1 416 2407 U:A cWW 3°: pseudoknot Strong M   6.7 6.7 2.0                         84.8 254 CG,UA,AU CG,UA,AU 5 6 5 0.91 1.0 1.0 2.0 1.0 1.0 -0.55 -0.73 0.08 0.12
16S 18.1 505 526 G:C cWW 3°: pseudoknot Strong M 97.0 0.1 0.5 0.6 1.3               0.4       0.1 831 GC GC,CG,UA,AU 6 8 5 0.71 0.42 0.98 1.4 0.98 1.0 1.87 1.78 0.0 0.72
16S 18.1 506 525 G:C cWW 3°: pseudoknot Strong M 89.3 0.2 0.8 8.1 0.1   0.1 0.2             0.7 0.4   832 GC,AU GC,CG,UA,AU 16 15 13 0.84 0.85 0.98 1.84 0.98 0.99 1.43 1.48 0.0 0.72
16S 18.1 507 524 C:G cWW 3°: pseudoknot Strong M   28.8 68.2 0.4   2.2       0.1     0.1     0.2   831 CG,UA,UG CG,UA,AU 16 26 11 0.52 0.92 0.97 1.89 0.97 0.99 1.08 1.06 0.0 0.72
16S 18 521 528 G:C cWW 3°: pseudoknot No Support M 99.6       0.1                 0.1     0.1 831 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 1.96 0.0 0.72
16S 18 522 527 C:G cWW 3°: pseudoknot Strong M   99.0   0.8             0.1             832 CG CG,AU 4 4 4 1.0 0.88 1.0 1.87 1.0 1.0 1.93 1.92 0.0 0.72
16S 19.1 571 865 U:A cWW 3°: pseudoknot Weak M   2.3 93.0 0.7 0.6 0.8 0.7     0.1   0.1 0.1   0.1 0.2 1.3 881 CG,UA CG,UA,AU 13 15 2 0.14 0.52 0.97 1.49 0.97 0.99 1.63 1.55 0.01 0.75
23S 41.1 1005 1138 C:G cWW 3°: pseudoknot Strong M 1.5 10.5 4.7     0.4                     83.0 275 CG,UA GC,CG,UA 24 4 4 0.29 0.94 0.98 1.92 0.98 1.0 -0.59 -0.53 0.47 0.15
23S 41.1 1006 1137 C:G cWW 3°: pseudoknot Strong M   13.0 3.6 0.4   0.4                     82.5 276 CG,UA CG,UA,AU 22 6 5 0.36 0.92 0.98 1.9 0.98 1.0 -0.55 -0.5 0.47 0.15
23S 50.1 1343 1404 G:C cWW 3°: pseudoknot Strong M 1.8 0.7 0.7 2.5   0.4 0.7                 0.4 92.7 276 AU GC,CG,UA,AU 11 3 3 0.43 0.69 0.8 1.49 0.8 0.85 0.35 -0.37 0.66 0.06
23S 50.1 1344 1403 U:A cWW 3°: pseudoknot Strong M 0.7 0.4 4.0 1.1 0.4       0.4             0.4 92.7 276 UA GC,CG,UA,AU 13 2 2 0.27 0.67 0.85 1.52 0.85 0.9 0.04 -0.35 0.64 0.06
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong M   0.4 6.1             0.4 81.0         11.0 1.2 263 UA,CC,UU CC,UU 6 11 5 0.59 0.62 0.93 1.55 0.07 0.07 1.31 1.02 0.01 0.83
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong M   0.6 2.6       2.6   1.6 0.3     5.2   0.3   86.7 309 UA,AA,GA AG,GA,UC 5 2 2 0.57 0.24 0.54 0.78 0.24 0.24 -0.54 -0.42 0.0 0.13
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong M   1.0 7.8     1.6 0.3     1.0     0.6       87.7 309 UA CG,UA 3 2 0 0.0 0.21 0.71 0.93 0.71 0.84 -0.42 -0.42 0.01 0.12
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong M 1.6   1.6 5.5 0.3   1.9   1.3       1.0       86.7 309 AU GC,UA,AU 4 7 3 0.55 0.42 0.66 1.07 0.66 0.68 -0.47 -0.54 0.0 0.13
23S 81.2 2283 2325 C:G cWW 3°: pseudoknot ??? M   1.0 3.9 0.3   5.5 0.3                 2.9 86.0 309 UA,UG,UU UG,AA 25 7 2 0.12 0.04 0.0 0.04 0.37 0.77 0.28 -0.52 0.81 0.14
23S 85.1 2326 2389 C:G cWW 3°: pseudoknot Strong M   3.2 3.6 0.6   5.8 0.6                   86.1 309 CG,UA,UG AU,UG 4 22 1 0.08 0.08 0.0 0.08 0.54 0.95 -0.47 -0.17 0.78 0.14
23S 85.1 2328 2387 A:U cWW 3°: pseudoknot Weak M     0.3 14.6                         85.1 309 AU UA,AU 1 23 1 0.08 1.0 1.0 2.0 1.0 1.0 -0.33 -0.32 0.61 0.15
23S 85.1 2329 2386 U:A cWW 3°: pseudoknot Strong M 0.3 0.3 13.3 1.0                         85.1 309 UA GC,CG,UA,AU 3 21 4 0.33 1.0 1.0 2.0 1.0 1.0 -0.41 -0.27 0.68 0.15
23S 85.1 2330 2385 G:C cWW 3°: pseudoknot Strong M 11.7 0.3 1.0 1.9                         85.1 309 GC GC,CG,UA,AU 5 24 5 0.34 1.0 1.0 2.0 1.0 1.0 -0.46 -0.63 0.58 0.15
23S 86.1 2359 2428 C:G cWW 3°: pseudoknot Strong M   74.1 9.4 1.9   0.6       1.9             11.9 309 CG,UA CG,UA,AU 6 10 3 0.38 0.81 0.97 1.78 0.97 0.98 0.65 0.99 0.11 0.87
23S 93.1 2626 2777 C:G cWW 3°: pseudoknot Strong M   0.4 2.2 1.8 0.4 0.4 0.9 1.8               2.2 89.9 227 UA,UU CG,UA,GU,AC 10 2 0 0.0 0.33 0.48 0.81 0.43 0.52 -0.65 -0.49 0.02 0.07

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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;