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.

6 rows where conformation = "tWW", group_code = 3 and strength = "Strong" sorted by position_1

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Suggested facets: reference_base_pair, UG, AG, gap, predominant_types, covarying_types, Xch, Ych, Cov3, WC, WCGU, YCons, DfDel

tertiary_type 2

molecule 2

strength 1

  • Strong · 6 ✖

group_code 1

conformation 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
23S 12.1 234 430 U:A tWW   Strong 3   4.7 92.6     1.2 0.6   0.2 0.2             0.6 512 CG,UA CG,UA 7 7 5 0.71 0.69 0.98 1.66 0.98 0.99 1.59 1.68 0.01 0.81
16S 23.1 722 733 G:G tWW 3°: base pair Strong 3 0.1   2.1 0.1 0.7 0.1 29.7 0.1 2.4       1.4 63.1     0.1 6134 UA,AA,AG,GG AA,GG 59 60 38 0.64 0.81 0.93 1.74 0.02 0.03 0.95 0.98 0.0 0.85
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong 3   46.9 52.3     0.2             0.2       0.4 495 CG,UA CG,UA 6 4 4 0.8 0.99 1.0 1.99 1.0 1.0 0.94 0.98 0.0 0.78
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 66 1800 1817 C:G tWW 3°: base pair Strong 3   66.6 0.9 29.5 0.2 0.2 0.4 0.4 0.2               1.5 458 CG,AU CG,UA,AU 1 5 2 0.67 0.95 0.98 1.94 0.98 0.99 0.9 0.85 0.0 0.72
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong 3   54.8       44.7           0.2         0.2 436 CG,UG   0 2 0 0.0 0.0 0.0 0.0 0.55 1.0 0.98 1.95 0.0 0.69

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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;