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.
7 rows where conformation = "tHW" sorted by position_1
This data as json, CSV (advanced)
Suggested facets: GC, AU, UG, AG, CA, CC, CU, GA, UU, gap, predominant_types, covarying_types, PE, PES, Cov3, WC, WCGU, 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | T | 0.2 | 0.4 | 7.2 | 0.2 | 2.5 | 69.9 | 0.4 | 0.1 | 2.1 | 0.4 | 0.7 | 3.7 | 0.2 | 0.1 | 11.9 | 7096 | GU,AA,AC,CC,GG | GU,UG,AC,CA | 98 | 108 | 48 | 0.47 | 0.41 | 0.88 | 1.29 | 0.01 | 0.09 | 0.53 | 0.41 | 0.0 | 0.73 | ||
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | 3 | 0.2 | 0.4 | 8.4 | 0.3 | 2.8 | 78.7 | 0.4 | 0.2 | 2.5 | 0.5 | 0.8 | 4.3 | 0.3 | 0.1 | 0.3 | 6105 | GU,AA,AC,CC,GG | GU,UG,AC,CA | 95 | 103 | 47 | 0.47 | 0.42 | 0.88 | 1.3 | 0.01 | 0.09 | 1.15 | 1.02 | 0.0 | 0.85 | ||
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | B | 0.1 | 0.4 | 10.5 | 0.3 | 1.1 | 79.6 | 0.2 | 0.1 | 0.6 | 0.5 | 0.8 | 5.4 | 0.1 | 0.3 | 4869 | GU,AC,GG | GU,UG,AC,CA | 72 | 84 | 46 | 0.59 | 0.54 | 0.91 | 1.45 | 0.01 | 0.11 | 1.2 | 1.01 | 0.0 | 0.83 | |||
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | A | 0.5 | 47.9 | 35.8 | 0.9 | 11.2 | 2.3 | 1.4 | 215 | AA,AC,CC,CU | AA,CC,UU | 7 | 13 | 1 | 0.1 | 0.24 | 0.6 | 0.85 | 0.01 | 0.01 | 1.33 | 0.73 | 0.0 | 0.81 | ||||||||||
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | C | 0.6 | 3.0 | 1.8 | 89.9 | 1.8 | 0.6 | 0.6 | 1.8 | 168 | AU,AC | UA,AC,GG | 2 | 5 | 1 | 0.29 | 0.14 | 0.0 | 0.14 | 0.04 | 0.04 | 1.73 | 1.32 | 0.01 | 0.91 | |||||||||
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | E | 0.4 | 0.1 | 0.2 | 1.3 | 83.6 | 1.0 | 0.6 | 9.8 | 0.9 | 1.4 | 0.2 | 0.6 | 1021 | AC,CC | UG,AC,GA | 16 | 6 | 0 | 0.0 | 0.07 | 0.0 | 0.07 | 0.01 | 0.01 | 1.26 | 1.66 | 0.0 | 0.96 | |||||
| 16S | 8 | 152 | 169 | A:C | tHW | 3°: base pair | Strong | M | 0.1 | 0.1 | 0.1 | 0.2 | 0.2 | 99.2 | 832 | GU,UG,AA | 1 | 0 | 0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | 0.0 | -0.13 | -0.07 | 0.0 | 0.0 |
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;