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.

5 rows where group_code = "A", molecule = "16S" and strength = "No Support" sorted by position_1

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Suggested facets: reference_base_pair, GC, predominant_types, Xch, Ych, PE, PES, WC, WCGU, XCons, YCons

tertiary_type 2

conformation 2

strength 1

  • No Support · 5 ✖

molecule 1

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 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 28 924 1392 C:G cWW   No Support A   100.0                               169 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.93 2.0 0.0 0.64
16S 30 944 1237 G:C No BP   No Support A 99.5             0.5                   191 GC   0 0 0 0.0 0.0 0.0 0.0 0.99 0.99 1.96 2.0 0.0 0.72
16S 31 963 972 G:C cWW   No Support A 100.0                                 201 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.76
16S 34 1061 1195 G:C cWW 3°: base pair No Support A 36.0     7.6 55.8                       0.5 197 GC,AU,GU   1 2 1 0.67 0.0 0.0 0.0 0.44 1.0 1.62 1.01 0.0 0.74

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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;