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.

16 rows where molecule = "5S" and tertiary_type = "3°: base pair" sorted by position_1

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: position_1, position_2, UA, UG, AC, GG, gap, sequences, predominant_types, covarying_types

group_code 4

strength 2

tertiary_type 1

  • 3°: base pair · 16 ✖

molecule 1

conformation 0

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
5S 3 75 101     3°: base pair Strong 3 1.1   1.6 27.3   1.3 3.9 11.5 11.1   0.2   40.9 0.2 0.5 0.2 0.2 611 AU,AA,AC,AG,GA AU,UG,CC,GA                          
5S 3 75 101     3°: base pair Strong B     2.6 0.3     3.0 0.3 5.0   0.3   88.1 0.3       302 UA,AA,AG,GA AG,CC,GA                          
5S 3 75 101     3°: base pair Strong A 52.3 6.8 18.2 4.5 2.3 2.3                 9.1 4.5   44 GC,CG,UA,AU,GU,UG,UC,UU GC,CG,UA,AU                          
5S 3 75 101     3°: base pair Strong E       57.7     2.7 20.8 18.8                 298 AU,AA,AC,AG                            
5S 3 76 100     3°: base pair Strong 3 1.0       0.2   13.7 0.2 0.2 0.2     52.5 32.1       611 AA,GA,GG AC,GA                          
5S 3 76 100     3°: base pair Strong B         0.3   29.8 0.3 0.7 0.3     1.0 67.5       302 AA,GG AA,GG                          
5S 3 76 100     3°: base pair Strong A 31.8 11.4 11.4 20.5 4.5 6.8       2.3         2.3 9.1   44 GC,CG,UA,AU,GU,UG,CA,UC,UU GC,CG,UA,AU                          
5S 3 76 100     3°: base pair Strong E                         99.7 0.3       298 GA                            
5S 3 77 99     3°: base pair Strong 3   1.0 98.7     0.2 0.2                     611 UA CG,UA                          
5S 3 77 99     3°: base pair Strong B     98.7     0.3 0.3                   0.7 302 UA                            
5S 3 77 99     3°: base pair Strong A   13.6 86.4                             44 CG,UA CG,UA                          
5S 3 77 99     3°: base pair Strong E     99.7     0.3                       298 UA                            
5S 3 78 98     3°: base pair Significant 3     0.3 0.5     5.2 0.3 92.3 0.7     0.2 0.3     0.2 611 AA,AG AG,CA                          
5S 3 78 98     3°: base pair Significant B     0.3 1.3     10.6 0.7 85.8       0.3 0.7     0.3 302 AA,AG AG,GA                          
5S 3 78 98     3°: base pair Significant A     2.3       2.3   86.4 9.1               44 UA,AA,AG,CA AG,CA                          
5S 3 78 98     3°: base pair Significant E                 100.0                 298 AG                            

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;