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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 = 3 and strength = "Strong" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, AC, GA, UU, sequences, covarying_types, Ych, PE, Cov1, Cov3, WC, 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

  • 3 · 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 3 0.1 8.9 2.3     57.7   0.1   0.1 12.3 0.6     17.5 0.3   5946 CG,UA,UG,CC,UC UG,CC 56 55 17 0.31 0.29 0.7 0.99 0.11 0.69 1.2 0.89 0.0 0.83
16S 34 1064 1192 G:C No BP   Strong 3 79.8   0.4   1.8 0.2   0.1 0.1     15.9 0.1 0.4 0.8 0.2 0.1 5606 GC,CU GC,UA,AG,CU 9 32 6 0.29 0.82 0.96 1.78 0.8 0.82 1.23 1.21 0.0 0.78
23S 55 1420 1578 A:U No BP   Strong 3 8.1 18.8 9.1 10.5 1.0 0.4   0.2 0.8 0.4   1.2       39.5 9.8 484 GC,CG,UA,AU,UU GC,CG,UU 26 22 11 0.46 0.53 0.74 1.27 0.52 0.53 -0.18 -0.05 0.02 0.69
23S 59 1527 1544 G:A No BP 3°: base pair Strong 3 2.9 32.6 4.7 0.4 13.4   0.8   0.2       33.8 0.2   0.4 10.4 485 GC,CG,UA,GU,GA CG,AU,GA 15 10 6 0.48 0.59 0.75 1.34 0.45 0.6 0.12 -0.1 0.0 0.69
23S 71 1935 1962 G:C No BP   Strong 3 56.9 39.9     2.5 0.5   0.2                   436 GC,CG,GU GC,CG 4 3 2 0.57 0.93 0.97 1.89 0.97 1.0 0.97 0.88 0.0 0.69
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong 3 0.2     2.1 0.9       20.1       76.7         437 AU,AG,GA AG,GA 8 8 7 0.88 0.86 0.97 1.83 0.02 0.03 1.24 1.07 0.0 0.69
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong 3   27.5 66.8     0.9       2.5     2.1     0.2   437 CG,UA,CA,GA CG,UA 11 10 7 0.67 0.83 0.94 1.77 0.94 0.95 0.98 1.11 0.0 0.69
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong 3 8.9     88.8 0.2         0.7   0.5 0.9         437 GC,AU GC,AU,CA 5 4 2 0.44 0.86 0.98 1.84 0.98 0.98 1.44 1.45 0.0 0.69
23S 84 2296 2322 U:A No BP   Strong 3     92.9         0.2   0.2     0.9   5.0 0.7   437 UA,UC UA,AC 1 5 0 0.0 0.03 0.0 0.03 0.93 0.93 1.88 1.64 0.0 0.69
23S 94 2637 2781 U:A No BP   Strong 3 1.1 20.3 71.0 0.8   1.1 0.3 0.3   1.8 1.1 0.3 0.3   1.3 0.5   379 CG,UA GC,CG,UA,AU 10 15 7 0.56 0.76 0.93 1.7 0.93 0.94 1.02 0.92 0.0 0.6
23S 98 2796 2800 U:A No BP   Strong 3 3.1 1.0 7.0 1.0   0.8       1.6           0.3 85.2 384 GC,UA GC,CG,UA,AU 7 7 3 0.43 0.67 0.82 1.49 0.82 0.88 -0.56 -0.55 0.0 0.09
23S 101 2849 2866 U:U No BP 3°: base pair Strong 3     0.3   2.0 2.6     0.3 0.3   0.9 0.6 30.4 0.3 59.4 3.2 352 GU,UG,GG,UU CA,GG,UU 16 12 7 0.5 0.82 0.93 1.75 0.0 0.05 0.82 0.7 0.02 0.54

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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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