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.

14 rows where conformation = "tWH" and strength = "Strong" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, UA, UG, AA, AG, CA, GA, UC, UU, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

group_code 7

molecule 2

tertiary_type 1

strength 1

  • Strong · 14 ✖

conformation 1

  • tWH · 14 ✖
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 17 438 496 U:A tWH 3°: base pair Strong T     53.9     0.2 1.5   0.3       1.5 16.2   0.2 25.9 6924 UA,GG UA,GG 44 43 17 0.39 0.81 0.95 1.76 0.73 0.73 -0.04 0.06 0.01 0.6
16S 17 438 496 U:A tWH 3°: base pair Strong 3     59.6     0.2 1.5   0.4       1.7 18.9 0.1 0.2 17.5 5934 UA,GG UA,GG 38 36 17 0.46 0.82 0.95 1.77 0.72 0.72 0.2 0.31 0.0 0.68
16S 17 438 496 U:A tWH 3°: base pair Strong B     71.9     0.2 1.9   0.5       2.2 22.9 0.1 0.2   4678 UA,GA,GG UA,GG 34 32 14 0.42 0.82 0.95 1.77 0.72 0.72 1.03 1.17 0.0 0.8
16S 17 438 496 U:A tWH 3°: base pair Strong A     77.0     0.4       0.4       21.7     0.4 226 UA,GG UA,GG 4 4 4 1.0 0.96 0.99 1.95 0.77 0.78 1.16 1.19 0.0 0.85
16S 17 438 496 U:A tWH 3°: base pair Strong C     98.8     0.6             0.6         163 UA   1 1 0 0.0 0.0 0.0 0.0 0.99 0.99 1.95 1.95 0.0 0.9
16S 17 438 496 U:A tWH 3°: base pair Strong E                                 100.0 1030     0 0 0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 -0.04 0.0 0.0
16S 17 438 496 U:A tWH 3°: base pair Strong M     4.3 0.1     1.7           0.4     0.2 93.3 835 UA UA,AU 5 6 0 0.0 0.0 0.0 0.0 0.04 0.04 -0.31 -0.42 0.0 0.0
23S 28 607 621 U:A tWH   Strong T 0.8 1.0 52.8 4.1 1.5 3.3 3.9 1.2 0.8 0.2 0.5   1.0 1.6 0.3 0.2 26.8 883 UA,AU,UG,AA UA,AU,CC,GG 19 16 7 0.4 0.3 0.81 1.1 0.8 0.87 -0.14 -0.14 0.0 0.62
23S 28 607 621 U:A tWH   Strong 3 1.3 1.7 67.6 4.8 2.5 5.6 6.0 2.1 1.2 0.2 0.8   1.5 2.7 0.6   1.6 521 UA,AU,GU,UG,AA,AC,GG UA,AU,CC,GG 16 15 7 0.45 0.27 0.77 1.04 0.77 0.85 0.76 0.74 0.0 0.81
23S 28 607 621 U:A tWH   Strong B     100.0                             282 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.86
23S 28 607 621 U:A tWH   Strong A     97.3     2.7                       37 UA,UG   0 0 0 0.0 0.0 0.0 0.0 0.97 1.0 2.0 1.82 0.0 0.9
23S 28 607 621 U:A tWH   Strong C     100.0                             100 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.97
23S 28 607 621 U:A tWH   Strong E 3.5 4.5 16.8 12.4 6.4 13.9 15.3 5.4 3.0 0.5 2.0   4.0 6.9 1.5   4.0 202 GC,CG,UA,AU,GU,UG,AA,AC,AG,CC,GA,GG UA,AU,CC,GG 16 15 7 0.45 0.27 0.4 0.67 0.39 0.6 0.02 -0.11 0.01 0.74
23S 28 607 621 U:A tWH   Strong M     5.3 4.2     1.1   0.4 0.4     0.4     0.8 87.5 262 UA,AU UA,AU 3 1 0 0.0 0.58 0.76 1.34 0.76 0.76 -0.47 -0.45 0.0 0.11

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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;