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.

12 rows where conformation = "No BP", group_code = "C" and strength = "Strong" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, UA, GU, GG, UU, sequences, predominant_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

tertiary_type 2

molecule 2

strength 1

  • Strong · 12 ✖

group_code 1

conformation 1

  • No BP · 12 ✖
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 20 582 758 C:C No BP 3°: base pair Strong C   0.6 3.0 1.2   73.8   0.6 0.6   1.8     1.2 15.9 1.2   164 UA,UG,UC AU,UG,CC 8 17 4 0.32 0.12 0.0 0.12 0.05 0.79 1.55 0.98 0.0 0.9
16S 34 1064 1192 G:C No BP   Strong C 89.6       6.1   0.6             3.7       163 GC,GU,GG GC,AA 1 8 1 0.22 0.06 0.0 0.06 0.9 0.96 1.95 1.4 0.0 0.9
23S 55 1420 1578 A:U No BP   Strong C     3.0 3.0 2.0   1.0 1.0       1.0       1.0 88.0 100 UA,AU,GU UA,AU 1 14 1 0.13 0.33 0.5 0.83 0.5 0.67 -0.5 0.6 0.85 0.12
23S 59 1527 1544 G:A No BP 3°: base pair Strong C 2.0 4.0 9.0 11.0 1.0 3.0 5.0   1.0 24.0 2.0 1.0 8.0 1.0 1.0 1.0 26.0 100 GC,CG,UA,AU,UG,AA,CA,CC,GA GC,AU,UG,CA 14 6 6 0.6 0.32 0.54 0.86 0.35 0.41 -0.63 -0.43 0.05 0.72
23S 71 1935 1962 G:C No BP   Strong C 97.0             2.0           1.0       101 GC,AC   1 1 0 0.0 0.0 0.0 0.0 0.97 0.97 1.86 1.92 0.0 0.98
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong C             3.0           97.0         101 AA,GA   1 0 0 0.0 0.0 0.0 0.0 0.0 0.0 1.81 2.0 0.0 0.98
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong C   96.0 3.0             1.0               101 CG,UA CG,UA 1 2 1 0.67 0.75 0.99 1.74 0.99 0.99 1.81 1.76 0.0 0.98
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong C 2.0 64.4   11.9 1.0                     20.8   101 GC,CG,AU,UU GC,CG,UU 5 4 4 0.89 0.64 0.87 1.51 0.78 0.79 0.6 0.95 0.0 0.98
23S 84 2296 2322 U:A No BP   Strong C     99.0                           1.0 102 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.9 1.9 0.0 0.98
23S 94 2637 2781 U:A No BP   Strong C     100.0                             56 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.54
23S 98 2796 2800 U:A No BP   Strong C     2.2                           97.8 90 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 -0.11 -0.11 0.0 0.02
23S 101 2849 2866 U:U No BP 3°: base pair Strong C         2.0 10.0               20.0   68.0   50 GU,UG,GG,UU GG,UU 2 3 1 0.4 0.62 0.88 1.5 0.0 0.12 1.24 1.12 0.0 0.48

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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;