home / crw2

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.

9 rows where conformation = "cWW", group_code = 3 and strength = "Significant" sorted by position_1

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: reference_base_pair, UA, GG, UU, gap, sequences, Xch, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, DfDel, PNuc

tertiary_type 2

  • 3°: base pair 1
  • 3°: pseudoknot 1

molecule 2

  • 23S 8
  • 5S 1

strength 1

  • Significant · 9 ✖

group_code 1

  • 3 · 9 ✖

conformation 1

  • cWW · 9 ✖
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 6.1 64 90 A:U cWW 3°: pseudoknot Significant 3 14.1 5.1 0.7 22.1   0.2 29.0             0.2     28.4 411 GC,CG,AU,AA GC,CG,AA 15 11 8 0.61 0.45 0.67 1.12 0.59 0.59 0.89 -0.72 0.19 0.47
5S 3 80 96 U:G cWW   Significant 3 0.3 8.5 0.2   0.2 89.2           0.2   0.2 0.2 1.1   611 CG,UG GC,UG,CU                          
23S 13 239 258 C:G cWW   Significant 3 3.3 8.2 20.3 4.9 1.0 31.6       3.9 9.8   0.2 0.4 13.9 2.1 0.4 512 GC,CG,UA,AU,UG,CA,CC,UC,UU AU,UG,CC,GA 52 42 18 0.38 0.22 0.47 0.69 0.37 0.7 0.71 0.13 0.0 0.81
23S 18 287 353 G:C cWW   Significant 3 12.4 6.5 9.4 14.5 6.5 3.1 8.2 1.1 1.5 0.2 2.9 4.8 3.4 6.9 1.0 2.7 14.9 523 GC,CG,UA,AU,GU,UG,AA,CC,CU,GA,GG,UU GC,CG,UA,AU 52 50 19 0.37 0.4 0.5 0.9 0.5 0.62 -0.35 -0.31 0.02 0.71
23S 38 874 903 G:C cWW   Significant 3 30.6 2.6 1.2 2.4 21.3   0.4 0.2         39.8       1.4 493 GC,CG,AU,GU,GA CG,AU,GA 9 16 6 0.48 0.09 0.0 0.09 0.37 0.59 1.42 0.2 0.0 0.77
23S 42 1035 1120 U:G cWW   Significant 3   0.2 0.2     98.3                   0.8 0.4 482 UG   0 1 0 0.0 0.0 0.0 0.0 0.0 0.99 1.93 1.89 0.0 0.76
23S 51 1348 1598 C:A cWW 3°: base pair Significant 3 32.1   4.3 0.4 0.6 0.4 0.9     19.7             41.6 468 GC,UA,CA GC,AU,UG,CA 8 22 2 0.13 0.78 0.9 1.68 0.63 0.65 -0.67 0.12 0.33 0.43
23S 77 2124 2174 G:C cWW   Significant 3 100.0                                 437 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.69
23S 88 2401 2415 U:G cWW   Significant 3 2.3 29.5 1.6 1.6   59.3     4.1           0.5 1.1   437 GC,CG,UG,AG GC,AU,UG 21 10 8 0.52 0.1 0.0 0.1 0.35 0.94 0.7 1.49 0.0 0.69

Advanced export

JSON shape: default, array, newline-delimited

CSV options:

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;
Powered by Datasette · Queries took 1673.334ms