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 = "B" and strength = "Strong" sorted by position_1

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Suggested facets: reference_base_pair, gap, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU

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 B   8.3 91.3                           0.4 276 CG,UA CG,UA 5 6 5 0.91 1.0 1.0 2.0 1.0 1.0 1.54 1.58 0.0 0.84
16S 23.1 722 733 G:G tWW 3°: base pair Strong B 0.2       0.2 0.1 24.5   2.9       0.5 71.3     0.1 4860 AA,AG,GG AA,GG 39 43 31 0.76 0.86 0.96 1.82 0.0 0.01 1.13 1.13 0.0 0.83
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong B   0.8 98.8                   0.4         247 UA CG,UA 2 1 1 0.67 0.67 1.0 1.66 1.0 1.0 1.89 1.93 0.0 0.76
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 66 1800 1817 C:G tWW 3°: base pair Strong B   100.0                               262 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.96 2.0 0.0 0.8
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong B   99.2                   0.4         0.4 241 CG   0 1 0 0.0 0.0 0.0 0.0 1.0 1.0 1.95 1.91 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;