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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

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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

tertiary_type 2

  • 3°: base pair 3
  • 3°: pseudoknot 3

molecule 2

  • 23S 10
  • 16S 2

strength 1

  • Strong · 12 ✖

group_code 1

  • A · 12 ✖

conformation 1

  • No BP · 12 ✖
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

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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;
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