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.
6 rows where conformation = "tWW", group_code = "M" and strength = "Strong" sorted by position_1
This data as json, CSV (advanced)
Suggested facets: reference_base_pair, AA, CA, predominant_types, covarying_types, Xch, Ych, PES, XCons, DfDel
| 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 | 12.1 | 234 | 430 | U:A | tWW | Strong | M | 3.5 | 9.4 | 0.4 | 0.4 | 1.2 | 0.4 | 0.4 | 0.4 | 0.8 | 83.1 | 254 | CG,UA | CG,UA,AU | 3 | 5 | 1 | 0.25 | 0.53 | 0.79 | 1.32 | 0.79 | 0.81 | -0.63 | -0.53 | 0.04 | 0.14 | ||||||||
| 16S | 23.1 | 722 | 733 | G:G | tWW | 3°: base pair | Strong | M | 0.2 | 5.2 | 10.2 | 12.1 | 1.8 | 4.4 | 19.3 | 1.9 | 24.0 | 3.3 | 0.9 | 1.0 | 1.2 | 6.0 | 1.1 | 2.8 | 4.5 | 896 | CG,UA,AU,UG,AA,AG,CA,GG,UU | UA,GU,AG,CC | 101 | 59 | 8 | 0.1 | 0.18 | 0.0 | 0.18 | 0.29 | 0.35 | 0.16 | 0.15 | 0.02 | 0.74 |
| 23S | 43.1 | 1082 | 1086 | U:A | tWW | 3°: base pair | Strong | M | 0.4 | 0.7 | 13.1 | 3.3 | 0.4 | 0.4 | 0.4 | 0.4 | 0.4 | 2.5 | 78.2 | 275 | UA,AU,UU | GC,CG,UA,AU | 16 | 8 | 4 | 0.33 | 0.5 | 0.8 | 1.3 | 0.8 | 0.82 | 0.16 | -0.62 | 0.6 | 0.19 | ||||||
| 23S | 65.1 | 1782 | 2586 | U:U | tWW | 3°: pseudoknot | Strong | M | 0.4 | 6.1 | 0.4 | 81.0 | 11.0 | 1.2 | 263 | UA,CC,UU | CC,UU | 6 | 11 | 5 | 0.59 | 0.62 | 0.93 | 1.55 | 0.07 | 0.07 | 1.31 | 1.02 | 0.01 | 0.83 | |||||||||||
| 23S | 66 | 1800 | 1817 | C:G | tWW | 3°: base pair | Strong | M | 70.3 | 1.8 | 1.4 | 0.4 | 2.8 | 1.1 | 0.7 | 21.6 | 283 | CG,CA | CG,UA,AU | 5 | 11 | 2 | 0.25 | 0.39 | 0.94 | 1.33 | 0.94 | 0.94 | 0.56 | 0.44 | 0.0 | 0.71 | |||||||||
| 23S | 69.1 | 1925 | 1929 | C:G | tWW | 3°: base pair | Strong | M | 93.9 | 3.2 | 1.3 | 1.0 | 0.6 | 311 | CG,UA | CG,UA,AU | 6 | 5 | 3 | 0.55 | 0.74 | 0.98 | 1.72 | 0.98 | 0.99 | 1.62 | 1.66 | 0.0 | 1.0 |
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;