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.

11 rows where group_code = "M", molecule = "23S" and strength = "Significant" sorted by position_1

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Suggested facets: reference_base_pair, CG, UA, GU, AA, AG, GA, sequences, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov3, WC, WCGU, XCons, YCons, DfDel

conformation 4

tertiary_type 2

strength 1

  • Significant · 11 ✖

molecule 1

  • 23S · 11 ✖

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
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 6.1 64 90 A:U cWW 3°: pseudoknot Significant M   0.4 0.4 2.1 0.4   0.4 0.4 1.7   0.9 0.9 1.3     1.3 89.7 233 AU AU,CC,GA 6 6 2 0.33 0.26 0.42 0.68 0.29 0.33 -0.57 -0.5 0.03 0.08
23S 13 239 258 C:G cWW   Significant M 1.2 2.4 32.7 29.5   6.7 3.5   0.4 5.5 0.4 1.2 0.4     5.5 10.7 254 CG,UA,AU,UG,AA,CA,UU GC,CG,UA,AU 25 21 9 0.39 0.58 0.74 1.32 0.74 0.81 0.08 -0.01 0.02 0.73
23S 18 287 353 G:C cWW   Significant M     0.4 2.4 0.4   0.8   0.4       0.4     1.2 94.1 254 AU UA,AU 1 3 0 0.0 0.11 0.0 0.11 0.47 0.53 -0.33 -0.33 0.0 0.05
23S 33 688 774 U:G No BP   Significant M     90.1 5.0 0.4 1.5       0.4         1.1 0.8 0.8 262 UA,AU UA,AU 4 7 3 0.55 0.54 0.96 1.5 0.96 0.98 1.56 1.41 0.01 0.83
23S 38 874 903 G:C cWW   Significant M 3.0   4.9 3.8 1.5 0.4 0.8                 1.5 84.3 266 GC,UA,AU GC,UA,AU 6 3 2 0.44 0.62 0.74 1.36 0.74 0.86 -0.57 -0.57 0.04 0.14
23S 42 1035 1120 U:G cWW   Significant M 0.7 0.4 4.0 2.2 0.7 8.0 0.4 0.7         0.4       82.6 276 UA,AU,UG GC,AU,UG 9 10 5 0.53 0.31 0.62 0.93 0.42 0.92 -0.54 -0.64 0.01 0.15
23S 51 1348 1598 C:A cWW 3°: base pair Significant M     16.7 2.5   0.7 3.3 2.5 0.4 14.1 1.8 0.7 0.4     0.4 56.6 276 UA,AU,AA,AC,CA UA,AC,CU 16 10 0 0.0 0.12 0.0 0.12 0.44 0.46 -0.83 -0.56 0.01 0.39
23S 61 1667 1993 G:U tSH   Significant M     3.6 1.4 93.1   0.4           0.4 0.4     0.7 276 UA,GU UA,GU 3 5 2 0.5 0.59 0.97 1.56 0.05 0.99 1.57 1.73 0.01 0.88
23S 77 2124 2174 G:C cWW   Significant M 11.3   0.6     0.3                 0.6 0.3 86.7 309 GC GC,UA 2 2 2 1.0 0.33 0.9 1.24 0.9 0.93 -0.38 -0.4 0.0 0.13
23S 88 2401 2415 U:G cWW   Significant M 0.3 1.3 3.6 1.6   9.1             0.3       83.8 309 UA,UG GC,AU,UG 6 9 4 0.53 0.27 0.68 0.95 0.42 0.98 -0.49 -0.53 0.0 0.16

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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;