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

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Suggested facets: helix_number, reference_base_pair, CG, AU, UG, AC, CA, CC, CU, GG, gap, 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 B     99.1     0.1             0.1     0.2 0.2 2163 UA   1 3 0 0.0 0.07 0.0 0.07 0.99 0.99 1.95 1.96 0.0 0.37
16S 2 18 917 C:G cWW 3°: pseudoknot Strong B   95.2 3.0     0.7     0.2 0.5   0.1         0.1 2163 CG,UA CG,UA 24 18 10 0.48 0.64 0.98 1.62 0.98 0.99 1.7 1.75 0.0 0.37
16S 2 19 916 A:U cWW 3°: pseudoknot Strong B   79.9 0.3 13.9   0.4     1.7 0.2 0.1 3.2   0.1     0.2 2190 CG,AU,CU CG,UA,AU 32 13 1 0.04 0.72 0.94 1.66 0.94 0.95 1.29 1.34 0.0 0.37
23S 6.1 61 93 C:G cWW 3°: pseudoknot Strong B 32.7 18.5 14.2 25.2   0.4   9.1                   254 GC,CG,UA,AU,AC GC,CG,UA,AU 16 17 12 0.73 0.86 0.91 1.76 0.91 0.91 0.09 0.12 0.0 0.78
23S 6.1 62 92   cWW 3°: pseudoknot Strong B 8.9 26.8 31.1 1.6 0.4 0.8 6.6   1.9 0.4     1.6     19.5 0.4 257 GC,CG,UA,AA,UU GC,CG,UA,AU 15 12 9 0.67 0.55 0.69 1.23 0.69 0.7 0.3 0.12 0.0 0.79
23S 6.1 64 90 A:U cWW 3°: pseudoknot Significant B 22.6 8.2 0.8 35.4   0.4 32.3             0.4       257 GC,CG,AU,AA GC,CG,UA,AU 11 11 8 0.73 0.49 0.67 1.16 0.67 0.67 0.76 0.15 0.0 0.79
23S 6.1 65 89 U:A cWW 3°: pseudoknot Strong B 15.6 39.7 11.3 24.1 8.2                 0.8   0.4   257 GC,CG,UA,AU,GU GC,CG,UA,AU 15 17 14 0.88 0.84 0.91 1.75 0.91 0.99 0.12 0.17 0.0 0.79
23S 6.1 66 88 C:G cWW 3°: pseudoknot Weak B   94.6 1.6     2.3 0.4   0.4         0.8       257 CG,UG CG,UA 2 1 0 0.0 0.29 0.96 1.25 0.96 0.98 1.63 1.86 0.0 0.79
23S 6.2 67 74 U:A cWH 3°: pseudoknot Strong B 2.7 2.7 71.9 10.5 6.6         0.4     0.4   0.4 3.9 0.4 256 GC,CG,UA,AU,GU,UU GC,CG,UA,AU 8 10 3 0.33 0.58 0.88 1.46 0.88 0.95 0.84 0.9 0.0 0.78
23S 19.1 317 334 G:C cWW 3°: pseudoknot Strong B 57.7 0.4   38.8 2.5 0.4         0.4             281 GC,AU,GU GC,CG,AU 20 20 16 0.8 0.92 0.97 1.89 0.97 1.0 0.95 0.97 0.0 0.86
23S 19.1 318 333 C:G cWW 3°: pseudoknot Strong B 3.2 82.1 6.8 1.8   6.1                       280 GC,CG,UA,UG GC,CG,UA,AU 12 11 10 0.87 0.66 0.94 1.6 0.94 1.0 1.12 1.31 0.0 0.86
23S 22.1 413 2410 C:G cWW 3°: pseudoknot Strong B   100.0                               232 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.71
23S 22.1 414 2409 C:G cWW 3°: pseudoknot Strong B   99.6                             0.4 232 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 1.95 0.0 0.71
23S 22.1 415 2408 A:U cWW 3°: pseudoknot Strong B       100.0                           232 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.71
23S 22.1 416 2407 U:A cWW 3°: pseudoknot Strong B   44.2 55.8                             233 CG,UA CG,UA 7 6 5 0.77 1.0 1.0 2.0 1.0 1.0 1.0 1.01 0.0 0.71
16S 18.1 505 526 G:C cWW 3°: pseudoknot Strong B 98.5 0.2 0.1   0.5           0.1     0.1 0.2   0.1 4329 GC GC,CG,UA 6 7 3 0.46 0.32 0.99 1.31 0.99 1.0 1.9 1.88 0.0 0.74
16S 18.1 506 525 G:C cWW 3°: pseudoknot Strong B 99.0     0.3       0.1     0.1           0.3 4377 GC GC,AU 5 3 1 0.25 0.52 1.0 1.51 1.0 1.0 1.93 1.93 0.0 0.74
16S 18.1 507 524 C:G cWW 3°: pseudoknot Strong B   99.1       0.2       0.2 0.2 0.1         0.1 4344 CG   7 7 0 0.0 0.0 0.0 0.0 0.99 0.99 1.94 1.93 0.0 0.74
16S 18 521 528 G:C cWW 3°: pseudoknot No Support B 99.4       0.1     0.1           0.1     0.2 4373 GC   3 3 0 0.0 0.06 0.0 0.06 1.0 1.0 1.96 1.95 0.0 0.74
16S 18 522 527 C:G cWW 3°: pseudoknot Strong B   99.2   0.4           0.1 0.1 0.1         0.1 4252 CG CG,AU 3 6 1 0.22 0.53 1.0 1.53 1.0 1.0 1.95 1.92 0.0 0.72
16S 19.1 571 865 U:A cWW 3°: pseudoknot Weak B     99.7                             4553 UA   2 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.98 1.98 0.0 0.78
23S 41.1 1005 1138 C:G cWW 3°: pseudoknot Strong B   100.0                               241 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.74
23S 41.1 1006 1137 C:G cWW 3°: pseudoknot Strong B   97.9       2.1                       241 CG,UG   2 0 0 0.0 0.0 0.0 0.0 0.98 1.0 1.86 2.0 0.0 0.74
23S 50.1 1343 1404 G:C cWW 3°: pseudoknot Strong B 100.0                                 265 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.81
23S 50.1 1344 1403 U:A cWW 3°: pseudoknot Strong B 1.1 8.7 90.2                             264 CG,UA GC,CG,UA 9 9 7 0.78 1.0 1.0 2.0 1.0 1.0 1.49 1.49 0.0 0.81
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong B                     63.1         36.9   236 CC,UU CC,UU 4 4 4 1.0 1.0 1.0 2.0 0.0 0.0 1.08 1.04 0.0 0.72
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong B                 34.4       65.6         241 AG,GA AG,GA 2 2 2 1.0 1.0 1.0 2.0 0.0 0.0 1.07 1.07 0.0 0.74
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong B   41.9 53.9             1.7     2.5         241 CG,UA,GA CG,UA 7 5 5 0.83 0.91 0.96 1.87 0.96 0.96 0.86 1.02 0.0 0.74
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong B       100.0                           241 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.74
23S 81.2 2283 2325 C:G cWW 3°: pseudoknot ??? B   75.2 10.7     13.6                     0.4 242 CG,UA,UG CG,UA 10 8 2 0.22 0.44 0.86 1.3 0.86 1.0 1.15 1.46 0.0 0.74
23S 85.1 2326 2389 C:G cWW 3°: pseudoknot Strong B   46.5       53.5                       241 CG,UG   12 1 0 0.0 0.0 0.0 0.0 0.47 1.0 0.96 1.96 0.0 0.74
23S 85.1 2328 2387 A:U cWW 3°: pseudoknot Weak B       100.0                           241 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.74
23S 85.1 2329 2386 U:A cWW 3°: pseudoknot Strong B 13.3   34.4 52.3                           241 GC,UA,AU GC,UA,AU 10 10 8 0.8 1.0 1.0 2.0 1.0 1.0 0.59 0.59 0.0 0.74
23S 85.1 2330 2385 G:C cWW 3°: pseudoknot Strong B 88.8   10.4 0.4                         0.4 241 GC,UA GC,UA,AU 2 2 2 1.0 1.0 1.0 2.0 1.0 1.0 1.44 1.44 0.0 0.74
23S 86.1 2359 2428 C:G cWW 3°: pseudoknot Strong B   99.6 0.4                             242 CG CG,UA 1 1 1 1.0 1.0 1.0 2.0 1.0 1.0 1.96 1.92 0.0 0.74
23S 93.1 2626 2777 C:G cWW 3°: pseudoknot Strong B   89.2 8.9     0.9                     0.9 213 CG,UA CG,UA 4 2 2 0.67 0.91 0.99 1.9 0.99 1.0 1.32 1.57 0.01 0.65

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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;