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 conformation = "tHS", group_code = "M" and molecule = "23S" sorted by position_1

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Suggested facets: reference_base_pair, sequences, covarying_types, Xch, Ych, Cov1, DfDel

strength 3

tertiary_type 1

molecule 1

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 5 53 117 A:G tHS 3°: base pair Significant M   0.4 4.7 3.9     0.4 0.9 2.1             0.9 86.6 233 UA,AU,AG CG,UA,AU 10 7 6 0.71 0.5 0.68 1.18 0.68 0.68 -0.51 -0.56 0.02 0.1
23S 59 1528 1543 A:G tHS 3°: base pair Strong M                     0.4           99.7 276     0 0 0 0.0 0.0 0.0 0.0 0.0 0.0 -0.03 -0.06 0.0 0.0
23S 62 1690 1697 A:G tHS 3°: base pair Strong M       0.7     2.5   10.5 3.2             83.0 277 AA,AG,CA AG,CA 3 7 2 0.4 0.5 0.81 1.31 0.04 0.04 -0.44 -0.51 0.0 0.15
23S 65 1775 1789 U:A tHS   Weak M   2.8 93.6 1.1                       2.5   283 CG,UA,UU CG,UA,AU 2 5 1 0.29 0.61 0.97 1.59 0.97 0.97 1.73 1.59 0.0 0.91
23S 66 1803 1814 A:G tHS 3°: base pair Weak M     1.4 1.8   0.4 3.2 0.4 10.6 0.7   0.4         81.3 283 AA,AG UA,AG,CU 3 8 3 0.55 0.22 0.66 0.88 0.17 0.19 -0.46 -0.57 0.06 0.17

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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;