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

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Suggested facets: helix_number, reference_base_pair, GC, CG, AU, GU, UG, AA, AC, AG, CA, CC, CU, GA, GG, UC, UU, gap, sequences, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov3, 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 T   0.1 98.3 0.1   0.4 0.1     0.1     0.1   0.2 0.2 0.4 3912 UA CG,UA,AU 13 16 7 0.48 0.15 0.0 0.15 0.99 0.99 1.92 1.9 0.0 0.46
16S 2 18 917 C:G cWW 3°: pseudoknot Strong T 0.6 92.5 3.9     0.6     0.3 1.7   0.1 0.1       0.2 3930 CG,UA GC,CG,UA 44 41 21 0.49 0.62 0.97 1.6 0.97 0.98 1.62 1.59 0.0 0.46
16S 2 19 916 A:U cWW 3°: pseudoknot Strong T 0.1 86.3 1.4 8.0   0.2 0.1   1.3 0.4 0.1 1.8   0.1     0.4 3959 CG,AU GC,CG,UA,AU 49 31 7 0.17 0.71 0.96 1.67 0.96 0.96 1.38 1.41 0.0 0.46
23S 6.1 61 93 C:G cWW 3°: pseudoknot Strong T 23.0 8.3 5.0 9.9 2.0 0.3 0.4 3.1 0.3   0.1   0.7 0.4 0.4 0.8 45.0 734 GC,CG,UA,AU,GU,AC GC,CG,UA,AU 36 33 21 0.61 0.73 0.84 1.57 0.84 0.89 -0.6 -0.87 0.12 0.39
23S 6.1 62 92   cWW 3°: pseudoknot Strong T 3.1 15.2 13.3 1.5 0.3 0.7 10.4   1.2 0.9 0.4 0.3 0.7 0.4   7.9 43.8 738 GC,CG,UA,AA,UU GC,CG,UA,AU 42 27 17 0.49 0.44 0.59 1.02 0.59 0.6 -0.67 -0.83 0.12 0.4
23S 6.1 64 90 A:U cWW 3°: pseudoknot Significant T 7.8 3.0 0.5 13.6 0.1 0.1 23.2 4.6 0.7   0.3 0.3 0.4 0.3   0.5 44.5 740 GC,CG,AU,AA,AC GC,CG,AA,UU 23 25 11 0.46 0.35 0.62 0.97 0.45 0.46 -0.16 -0.86 0.12 0.39
23S 6.1 65 89 U:A cWW 3°: pseudoknot Strong T 10.4 24.5 4.9 9.1 2.8   0.1 0.1 0.4 0.1     1.9 0.3 0.3 0.1 44.9 740 GC,CG,UA,AU,GU GC,CG,UA,AU 26 25 20 0.78 0.8 0.89 1.68 0.89 0.94 -0.75 -0.9 0.11 0.39
23S 6.1 66 88 C:G cWW 3°: pseudoknot Weak T 0.1 49.5 1.5 0.5 0.1 0.8 0.1   0.9 0.1 0.3   0.3 0.3 0.3 0.3 44.8 740 CG GC,CG,UA,AU 15 8 3 0.26 0.38 0.94 1.32 0.94 0.95 -0.29 -0.15 0.12 0.39
23S 6.2 67 74 U:A cWH 3°: pseudoknot Strong T 9.9 1.5 34.7 6.9 6.2 0.8 0.7 0.1 0.1 0.5 0.5 0.4 0.8 0.5 7.3 1.8 27.1 740 GC,UA,AU,GU,UC GC,CG,UA,AU 33 37 15 0.43 0.48 0.73 1.21 0.73 0.82 -0.45 -0.59 0.0 0.52
23S 19.1 317 334 G:C cWW 3°: pseudoknot Strong T 34.1 3.9 2.0 27.9 4.6 0.8   0.1 0.2   0.4 0.1       0.2 25.5 889 GC,CG,UA,AU,GU GC,CG,UA,AU 46 40 35 0.81 0.84 0.91 1.75 0.91 0.98 -0.41 -0.4 0.0 0.63
23S 19.1 318 333 C:G cWW 3°: pseudoknot Strong T 1.8 56.0 9.8 1.8 0.2 3.0 0.7   0.1 0.1 0.6         0.4 25.4 889 CG,UA,UG GC,CG,UA,AU 25 32 21 0.74 0.72 0.93 1.65 0.93 0.97 -0.12 -0.06 0.0 0.63
23S 22.1 413 2410 C:G cWW 3°: pseudoknot Strong T 0.1 47.7 1.4 20.4 1.4   0.3   0.1   0.1 0.3 0.1 0.3     27.9 771 CG,AU GC,CG,UA,AU 17 51 9 0.27 0.89 0.96 1.86 0.96 0.98 -0.23 0.2 0.19 0.53
23S 22.1 414 2409 C:G cWW 3°: pseudoknot Strong T 2.2 48.4 4.0 15.0 0.4 1.4   0.1 0.3 0.1     0.1       27.8 771 GC,CG,UA,AU GC,CG,UA,AU 17 37 8 0.3 0.9 0.97 1.86 0.97 0.99 -0.36 -0.1 0.14 0.53
23S 22.1 415 2408 A:U cWW 3°: pseudoknot Strong T 1.9 8.4 13.5 47.3 0.1 0.3     0.1   0.3         0.3 27.8 771 CG,UA,AU GC,CG,UA,AU 20 20 13 0.65 0.96 0.99 1.94 0.99 0.99 -0.39 -0.35 0.03 0.53
23S 22.1 416 2407 U:A cWW 3°: pseudoknot Strong T 2.3 31.3 32.3 2.2 0.8 2.6   0.3               0.4 27.7 772 GC,CG,UA,AU,UG GC,CG,UA,AU 24 23 17 0.72 0.9 0.94 1.84 0.94 0.99 -0.39 -0.51 0.02 0.53
16S 18.1 505 526 G:C cWW 3°: pseudoknot Strong T 98.6 0.2 0.2 0.1 0.4               0.1 0.1 0.1   0.1 6520 GC GC,CG,UA,AU 13 17 8 0.53 0.37 0.99 1.36 0.99 1.0 1.91 1.88 0.0 0.76
16S 18.1 506 525 G:C cWW 3°: pseudoknot Strong T 97.6   0.1 1.1       0.5     0.1       0.1   0.2 6563 GC GC,UA,AU 25 19 14 0.64 0.6 0.99 1.59 0.99 0.99 1.82 1.86 0.0 0.77
16S 18.1 507 524 C:G cWW 3°: pseudoknot Strong T   89.5 8.7     0.5     0.2 0.1 0.5 0.1         0.1 6527 CG,UA CG,UA 31 36 11 0.33 0.85 0.98 1.83 0.98 0.99 1.51 1.49 0.0 0.77
16S 18 521 528 G:C cWW 3°: pseudoknot No Support T 99.5       0.1     0.1           0.1     0.2 6570 GC   3 5 0 0.0 0.04 0.0 0.04 1.0 1.0 1.96 1.96 0.0 0.77
16S 18 522 527 C:G cWW 3°: pseudoknot Strong T   99.3   0.4             0.1           0.1 6444 CG CG,AU 8 10 5 0.56 0.58 1.0 1.58 1.0 1.0 1.95 1.93 0.0 0.76
16S 19.1 571 865 U:A cWW 3°: pseudoknot Weak T   0.3 98.8 0.1 0.1 0.2 0.1                   0.1 6825 UA CG,UA,GU 15 16 2 0.13 0.41 0.99 1.4 0.99 1.0 1.92 1.89 0.0 0.8
23S 41.1 1005 1138 C:G cWW 3°: pseudoknot Strong T 22.2 47.7 2.2 0.2   0.1               0.1   0.1 27.4 847 GC,CG,UA GC,CG,UA,AU 28 8 8 0.44 0.99 0.99 1.98 0.99 1.0 0.04 -0.17 0.14 0.59
23S 41.1 1006 1137 C:G cWW 3°: pseudoknot Strong T   68.0 3.7 0.1   0.7 0.2   0.1               27.2 848 CG,UA CG,UA,AU 27 11 8 0.42 0.78 0.98 1.77 0.98 0.99 0.41 0.41 0.14 0.59
23S 50.1 1343 1404 G:C cWW 3°: pseudoknot Strong T 63.0 1.2 1.5 1.7 2.0 0.1 0.2 0.1 0.1         0.1   0.1 29.7 863 GC,GU GC,CG,UA,AU 15 12 9 0.67 0.61 0.96 1.57 0.96 0.99 0.49 0.1 0.2 0.58
23S 50.1 1344 1403 U:A cWW 3°: pseudoknot Strong T 0.6 10.1 58.2 0.3 0.5 0.1     0.1             0.1 29.9 862 CG,UA GC,CG,UA,AU 30 18 16 0.67 0.93 0.99 1.92 0.99 1.0 0.25 -0.01 0.19 0.58
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong T   0.1 2.1             0.1 60.3         36.9 0.5 770 UA,CC,UU CC,UU 13 19 12 0.75 0.94 0.98 1.92 0.02 0.02 1.02 0.86 0.0 0.73
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong T 0.1 0.2 0.9 1.1 0.5   1.3   11.0 0.1     53.0   0.1   31.6 847 AG,GA AG,GA,UC 14 10 9 0.75 0.72 0.94 1.66 0.04 0.04 -0.13 -0.1 0.0 0.55
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong T   26.0 37.7     1.1 0.1     1.8     1.3     0.1 32.0 847 CG,UA CG,UA 15 14 8 0.55 0.86 0.94 1.79 0.94 0.95 -0.3 -0.21 0.0 0.55
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong T 5.4 7.7 0.6 49.2 0.4   0.7   0.5 0.4   0.2 0.8     2.5 31.6 847 GC,CG,AU,UU GC,CG,UA,AU 14 15 9 0.62 0.72 0.92 1.64 0.92 0.93 -0.37 -0.3 0.0 0.55
23S 81.2 2283 2325 C:G cWW 3°: pseudoknot ??? T   28.4 23.7 0.1   15.2 0.1                 1.1 31.4 848 CG,UA,UG CG,UA,AU 44 21 6 0.18 0.59 0.76 1.35 0.76 0.98 0.51 -0.24 0.24 0.56
23S 85.1 2326 2389 C:G cWW 3°: pseudoknot Strong T 0.4 22.6 2.9 13.1 0.1 26.4 0.2           2.7 0.1     31.3 848 CG,UA,AU,UG,GA AU,UG,GA 32 32 6 0.19 0.37 0.61 0.99 0.57 0.95 -0.71 0.19 0.23 0.56
23S 85.1 2328 2387 A:U cWW 3°: pseudoknot Weak T     0.1 68.4       0.5                 31.0 848 AU UA,AU 1 24 1 0.08 0.2 0.0 0.2 0.99 0.99 0.47 0.74 0.18 0.56
23S 85.1 2329 2386 U:A cWW 3°: pseudoknot Strong T 25.8 0.1 14.9 27.7                 0.2   0.2   31.0 848 GC,UA,AU GC,CG,UA,AU 18 36 16 0.59 0.99 0.99 1.98 0.99 0.99 -0.59 0.01 0.2 0.56
23S 85.1 2330 2385 G:C cWW 3°: pseudoknot Strong T 61.9 0.5 3.3 2.8 0.2                       31.3 848 GC,UA,AU GC,CG,UA,AU 13 33 13 0.56 0.97 1.0 1.96 1.0 1.0 0.08 0.38 0.17 0.56
23S 86.1 2359 2428 C:G cWW 3°: pseudoknot Strong T   67.0 22.4 1.5 0.2 0.2 0.7     3.5             4.4 848 CG,UA,CA CG,UA,AU 13 14 6 0.44 0.83 0.95 1.79 0.95 0.96 0.73 0.9 0.03 0.78
23S 93.1 2626 2777 C:G cWW 3°: pseudoknot Strong T   42.1 10.1 0.6 0.2 2.0 1.1 0.8 3.5 0.3   0.5 0.6 0.5   0.8 37.4 663 CG,UA,UG,AG CG,UA,GU,AC 31 12 9 0.42 0.53 0.85 1.38 0.84 0.88 -0.54 -0.31 0.01 0.4

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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;