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

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Suggested facets: helix_number, reference_base_pair, GC, AU, GU, UG, 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, 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 3     98.5     0.5       0.1     0.1   0.2 0.2 0.3 3123 UA   3 6 1 0.22 0.05 0.0 0.05 0.99 0.99 1.94 1.92 0.0 0.43
16S 2 18 917 C:G cWW 3°: pseudoknot Strong 3   92.8 3.9     0.7     0.2 2.1   0.1         0.2 3137 CG,UA,CA CG,UA 27 23 11 0.44 0.56 0.97 1.53 0.97 0.98 1.68 1.66 0.0 0.44
16S 2 19 916 A:U cWW 3°: pseudoknot Strong 3   85.3 0.9 9.6   0.3     1.2 0.3 0.1 2.2   0.1     0.2 3166 CG,AU,CU CG,UA,AU 32 16 1 0.04 0.72 0.96 1.68 0.96 0.96 1.39 1.41 0.0 0.44
23S 6.1 61 93 C:G cWW 3°: pseudoknot Strong 3 26.0 14.3 8.8 15.7   0.5   5.7         0.2 0.2     28.5 407 GC,CG,UA,AU,AC GC,CG,UA,AU 22 20 13 0.62 0.85 0.91 1.76 0.91 0.91 0.29 -0.76 0.19 0.46
23S 6.1 62 92   cWW 3°: pseudoknot Strong 3 5.6 25.1 19.8 1.0 0.2 0.5 4.1   1.2 0.2 0.2   1.0 0.2   12.2 28.5 410 GC,CG,UA,AA,UU GC,CG,UA,AU 23 14 10 0.54 0.57 0.72 1.29 0.72 0.73 0.41 -0.73 0.19 0.47
23S 6.1 64 90 A:U cWW 3°: pseudoknot Significant 3 14.1 5.1 0.7 22.1   0.2 29.0             0.2     28.4 411 GC,CG,AU,AA GC,CG,AA 15 11 8 0.61 0.45 0.67 1.12 0.59 0.59 0.89 -0.72 0.19 0.47
23S 6.1 65 89 U:A cWW 3°: pseudoknot Strong 3 18.5 24.8 7.1 15.1 5.1                 0.5 0.2 0.2 28.5 411 GC,CG,UA,AU,GU GC,CG,UA,AU 15 17 14 0.88 0.87 0.92 1.78 0.92 0.99 0.14 -0.78 0.19 0.47
23S 6.1 66 88 C:G cWW 3°: pseudoknot Weak 3   67.4 1.5     1.5 0.2   0.2 0.2       0.5     28.5 411 CG CG,UA 10 2 1 0.17 0.35 0.96 1.32 0.96 0.98 0.75 0.43 0.19 0.47
23S 6.2 67 74 U:A cWH 3°: pseudoknot Strong 3 2.2 2.2 60.3 8.5 6.3 1.5       0.7 1.0   0.2   13.1 2.7 1.1 411 GC,CG,UA,AU,GU,UC,UU GC,CG,UA,AU 17 20 6 0.32 0.34 0.74 1.08 0.74 0.82 0.84 0.45 0.0 0.64
23S 19.1 317 334 G:C cWW 3°: pseudoknot Strong 3 52.7 6.5 3.4 27.5 7.1 1.3   0.2 0.4   0.7 0.2           535 GC,CG,UA,AU,GU GC,CG,UA,AU 38 32 27 0.77 0.79 0.9 1.69 0.9 0.98 0.56 0.51 0.0 0.85
23S 19.1 318 333 C:G cWW 3°: pseudoknot Strong 3 3.0 71.2 15.7 2.6 0.4 4.9 0.6   0.2   0.6         0.7 0.2 535 GC,CG,UA,AU,UG GC,CG,UA,AU 19 25 16 0.73 0.74 0.93 1.67 0.93 0.98 0.81 0.92 0.0 0.85
23S 22.1 413 2410 C:G cWW 3°: pseudoknot Strong 3 0.2 57.3 1.4 37.2 2.6       0.2     0.2 0.2 0.5       419 CG,AU,GU GC,CG,UA,AU 11 7 5 0.56 0.91 0.96 1.87 0.96 0.99 0.65 0.9 0.0 0.67
23S 22.1 414 2409 C:G cWW 3°: pseudoknot Strong 3 4.1 58.5 6.7 27.4 0.7 1.7     0.2 0.2     0.2       0.2 419 GC,CG,UA,AU GC,CG,UA,AU 10 8 5 0.56 0.93 0.97 1.89 0.97 0.99 0.44 0.55 0.0 0.66
23S 22.1 415 2408 A:U cWW 3°: pseudoknot Strong 3 3.6 15.5 23.2 56.3 0.2 0.5     0.2   0.5             419 GC,CG,UA,AU GC,CG,UA,AU 17 13 11 0.73 0.97 0.99 1.95 0.99 0.99 0.38 0.42 0.0 0.67
23S 22.1 416 2407 U:A cWW 3°: pseudoknot Strong 3 4.3 31.0 54.5 2.9 1.4 4.8   0.5               0.7   420 GC,CG,UA,AU,UG GC,CG,UA,AU 18 16 11 0.65 0.84 0.93 1.76 0.93 0.99 0.52 0.54 0.0 0.67
16S 18.1 505 526 G:C cWW 3°: pseudoknot Strong 3 98.8 0.2 0.1   0.4           0.1     0.1 0.1   0.1 5536 GC GC,CG,UA 6 7 3 0.46 0.3 0.99 1.29 0.99 1.0 1.92 1.9 0.0 0.77
16S 18.1 506 525 G:C cWW 3°: pseudoknot Strong 3 98.7     0.3       0.5     0.1     0.1 0.1   0.2 5579 GC GC,AU 9 3 1 0.17 0.26 0.99 1.25 0.99 0.99 1.9 1.94 0.0 0.78
16S 18.1 507 524 C:G cWW 3°: pseudoknot Strong 3   98.4       0.3   0.1 0.3 0.1 0.6 0.1         0.2 5544 CG CG,AC 15 10 0 0.0 0.04 0.0 0.04 0.99 0.99 1.91 1.9 0.0 0.77
16S 18 521 528 G:C cWW 3°: pseudoknot No Support 3 99.5       0.1     0.1           0.1     0.1 5577 GC   3 4 0 0.0 0.05 0.0 0.05 1.0 1.0 1.97 1.96 0.0 0.78
16S 18 522 527 C:G cWW 3°: pseudoknot Strong 3   99.3   0.3           0.1 0.1 0.1         0.1 5452 CG CG,AU 4 6 1 0.2 0.5 1.0 1.5 1.0 1.0 1.95 1.94 0.0 0.76
16S 19.1 571 865 U:A cWW 3°: pseudoknot Weak 3     99.7     0.1                       5788 UA   2 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.98 1.98 0.0 0.81
23S 41.1 1005 1138 C:G cWW 3°: pseudoknot Strong 3 39.0 59.1 0.8                     0.2   0.2 0.6 472 GC,CG GC,CG,UA 2 2 2 1.0 0.99 1.0 1.99 1.0 1.0 0.92 0.91 0.0 0.74
23S 41.1 1006 1137 C:G cWW 3°: pseudoknot Strong 3   94.1 4.2     1.1     0.2               0.4 472 CG,UA CG,UA 4 4 3 0.75 0.77 0.99 1.76 0.99 1.0 1.58 1.71 0.0 0.75
23S 50.1 1343 1404 G:C cWW 3°: pseudoknot Strong 3 90.6 1.6 2.3 1.2 3.5     0.2 0.2         0.2     0.2 487 GC,UA,GU GC,CG,UA,AU 3 8 5 0.91 0.56 0.96 1.51 0.96 0.99 1.58 1.43 0.0 0.77
23S 50.1 1344 1403 U:A cWW 3°: pseudoknot Strong 3 0.6 17.7 81.1     0.2                     0.4 486 CG,UA GC,CG,UA 16 15 13 0.84 0.99 1.0 1.99 1.0 1.0 1.23 1.25 0.0 0.77
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong 3                     37.9         61.9 0.2 412 CC,UU CC,UU 7 7 7 1.0 1.0 1.0 2.0 0.0 0.0 1.01 1.05 0.0 0.65
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong 3 0.2     2.1 0.9       20.1       76.7         437 AU,AG,GA AG,GA 8 8 7 0.88 0.86 0.97 1.83 0.02 0.03 1.24 1.07 0.0 0.69
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong 3   27.5 66.8     0.9       2.5     2.1     0.2   437 CG,UA,CA,GA CG,UA 11 10 7 0.67 0.83 0.94 1.77 0.94 0.95 0.98 1.11 0.0 0.69
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong 3 8.9     88.8 0.2         0.7   0.5 0.9         437 GC,AU GC,AU,CA 5 4 2 0.44 0.86 0.98 1.84 0.98 0.98 1.44 1.45 0.0 0.69
23S 81.2 2283 2325 C:G cWW 3°: pseudoknot ??? 3   51.0 41.4     7.6                       437 CG,UA,UG CG,UA 10 8 2 0.22 0.85 0.92 1.77 0.92 1.0 1.0 1.02 0.0 0.69
23S 85.1 2326 2389 C:G cWW 3°: pseudoknot Strong 3 0.7 34.3 2.5 24.9 0.2 31.8             5.3 0.2       437 CG,UA,AU,UG,GA CG,AU,GA 20 8 5 0.36 0.46 0.65 1.1 0.62 0.94 0.19 0.77 0.0 0.69
23S 85.1 2328 2387 A:U cWW 3°: pseudoknot Weak 3       99.1       0.9                   437 AU   0 1 0 0.0 0.0 0.0 0.0 0.99 0.99 2.0 1.9 0.0 0.69
23S 85.1 2329 2386 U:A cWW 3°: pseudoknot Strong 3 49.9   19.0 30.2                 0.5   0.5     437 GC,UA,AU GC,UA,AU 14 14 11 0.79 0.98 0.99 1.97 0.99 0.99 0.52 0.49 0.0 0.69
23S 85.1 2330 2385 G:C cWW 3°: pseudoknot Strong 3 89.9 0.7 5.7 2.7 0.5                       0.5 437 GC,UA,AU GC,CG,UA,AU 5 6 5 0.91 0.95 0.99 1.95 0.99 1.0 1.4 1.4 0.0 0.69
23S 86.1 2359 2428 C:G cWW 3°: pseudoknot Strong 3   55.0 36.1 1.6 0.5   1.4     5.5               438 CG,UA,CA CG,UA,AU 6 3 2 0.44 0.84 0.93 1.76 0.93 0.93 0.84 0.86 0.0 0.69
23S 93.1 2626 2777 C:G cWW 3°: pseudoknot Strong 3   58.7 16.1     3.2 1.3 0.3 6.1 0.5   0.8 1.1 0.8     11.2 380 CG,UA,UG,AG CG,UA,AC 20 9 8 0.55 0.54 0.85 1.39 0.84 0.88 0.28 0.56 0.03 0.54

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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;