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 = "A" and strength = "Strong" sorted by position_1
This data as json, CSV (advanced)
Suggested facets: helix_number, reference_base_pair, UA, sequences, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc
| 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 | A | 1.8 | 94.9 | 3.2 | 217 | UG,UC | 0 | 4 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.02 | 0.97 | 2.0 | 1.52 | 0.0 | 0.82 | |||||||||||||||
| 16S | 34 | 1064 | 1192 | G:C | No BP | Strong | A | 100.0 | 198 | GC | 0 | 0 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 1.0 | 1.0 | 2.0 | 2.0 | 0.0 | 0.75 | ||||||||||||||||||
| 23S | 55 | 1420 | 1578 | A:U | No BP | Strong | A | 39.0 | 29.3 | 7.3 | 24.4 | 41 | GC,AU,GU | GC,AU | 3 | 3 | 3 | 1.0 | 0.8 | 0.9 | 1.7 | 0.9 | 1.0 | -0.02 | -0.04 | 0.0 | 0.76 | ||||||||||||||
| 23S | 59 | 1527 | 1544 | G:A | No BP | 3°: base pair | Strong | A | 73.2 | 26.8 | 41 | GU | 0 | 1 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 1.0 | 0.57 | 0.56 | 0.07 | 0.73 | ||||||||||||||||
| 23S | 71 | 1935 | 1962 | G:C | No BP | Strong | A | 22.0 | 51.2 | 26.8 | 41 | GC,CG,GU | CG,GU | 1 | 1 | 0 | 0.0 | 0.55 | 0.78 | 1.33 | 0.73 | 1.0 | 1.0 | 0.52 | 0.0 | 1.0 | |||||||||||||||
| 23S | 76.1 | 2112 | 2169 | G:A | No BP | 3°: pseudoknot | Strong | A | 4.9 | 12.2 | 82.9 | 41 | AU,AG,GA | AG,GA | 3 | 3 | 3 | 1.0 | 0.71 | 0.95 | 1.67 | 0.05 | 0.05 | 1.34 | 1.19 | 0.0 | 1.0 | ||||||||||||||
| 23S | 76.1 | 2113 | 2170 | U:A | No BP | 3°: pseudoknot | Strong | A | 29.3 | 48.8 | 17.1 | 4.9 | 41 | CG,UA,CA,GA | CG,UA | 2 | 1 | 0 | 0.0 | 0.57 | 0.78 | 1.35 | 0.78 | 0.78 | 0.77 | 1.13 | 0.0 | 1.0 | |||||||||||||
| 23S | 76.1 | 2117 | 2172 | A:U | No BP | 3°: pseudoknot | Strong | A | 85.4 | 14.6 | 41 | GC,AU | GC,AU | 1 | 1 | 1 | 1.0 | 1.0 | 1.0 | 2.0 | 1.0 | 1.0 | 1.4 | 1.4 | 0.0 | 1.0 | |||||||||||||||
| 23S | 84 | 2296 | 2322 | U:A | No BP | Strong | A | 100.0 | 41 | UA | 0 | 0 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 1.0 | 1.0 | 2.0 | 2.0 | 0.0 | 1.0 | ||||||||||||||||||
| 23S | 94 | 2637 | 2781 | U:A | No BP | Strong | A | 100.0 | 41 | UA | 0 | 0 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 1.0 | 1.0 | 2.0 | 2.0 | 0.0 | 1.0 | ||||||||||||||||||
| 23S | 98 | 2796 | 2800 | U:A | No BP | Strong | A | 30.0 | 2.5 | 5.0 | 5.0 | 57.5 | 40 | GC,CG,AU,UG | GC,AU,UG | 2 | 2 | 2 | 1.0 | 0.8 | 0.94 | 1.74 | 0.88 | 1.0 | -0.69 | -0.63 | 0.0 | 0.41 | |||||||||||||
| 23S | 101 | 2849 | 2866 | U:U | No BP | 3°: base pair | Strong | A | 2.6 | 10.5 | 78.9 | 7.9 | 38 | UA,UG,UU | 0 | 1 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.03 | 0.14 | 2.0 | 0.8 | 0.07 | 0.85 |
Advanced export
JSON shape: default, array, newline-delimited
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;