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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 = "T" and strength = "Strong" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, AU, GU, UG, AA, AC, AG, CA, CC, CU, GA, UC, UU, gap, sequences, predominant_types, covarying_types, Xch, Ych, PE, Cov1, Cov3, C1_C3, WC, WCGU, 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

  • T · 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 T 0.1 7.6 7.8 0.1   52.0 0.9 0.2 0.1 0.5 10.5 0.5   0.1 15.3 0.3 3.9 6988 CG,UA,UG,CC,UC UG,AA,CC 95 111 26 0.25 0.26 0.66 0.92 0.16 0.7 0.79 0.52 0.03 0.79
16S 34 1064 1192 G:C No BP   Strong T 73.2   2.5 0.4 1.8 0.2 0.2 0.1 0.1 0.7 0.1 12.9 2.5 0.5 4.2 0.4 0.1 6914 GC,UA,CU,GA,UC GC,UA,AG,CU 53 71 16 0.26 0.58 0.89 1.47 0.76 0.78 0.99 1.0 0.0 0.81
23S 55 1420 1578 A:U No BP   Strong T 4.5 10.9 5.9 7.0 0.8 0.2 0.1 0.2 0.6 0.2   0.8       22.3 46.3 860 GC,CG,UA,AU,UU GC,CG,AA,UU 29 38 14 0.42 0.5 0.71 1.2 0.53 0.55 -0.83 -0.73 0.1 0.44
23S 59 1527 1544 G:A No BP 3°: base pair Strong T 1.9 18.8 3.7 1.6 7.7 0.3 1.0   0.2 2.8 0.2 0.1 20.0 0.2 0.1 0.3 40.8 861 CG,UA,GU,CA,GA CG,AU,GA,UC 29 16 12 0.53 0.53 0.69 1.21 0.44 0.58 -0.71 -0.76 0.0 0.49
23S 71 1935 1962 G:C No BP   Strong T 51.6 20.5   16.5 5.7 0.2 0.2 2.6 1.1       0.2 0.7 0.2 0.4   847 GC,CG,AU,GU,AC GC,CG,AU 21 23 8 0.36 0.77 0.89 1.65 0.89 0.95 0.55 0.52 0.0 0.81
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong T 0.1 0.2 0.9 1.1 0.5   1.3   11.0 0.1     53.0   0.1   31.6 847 AG,GA AG,GA,UC 14 10 9 0.75 0.72 0.94 1.66 0.04 0.04 -0.13 -0.1 0.0 0.55
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong T   26.0 37.7     1.1 0.1     1.8     1.3     0.1 32.0 847 CG,UA CG,UA 15 14 8 0.55 0.86 0.94 1.79 0.94 0.95 -0.3 -0.21 0.0 0.55
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong T 5.4 7.7 0.6 49.2 0.4   0.7   0.5 0.4   0.2 0.8     2.5 31.6 847 GC,CG,AU,UU GC,CG,UA,AU 14 15 9 0.62 0.72 0.92 1.64 0.92 0.93 -0.37 -0.3 0.0 0.55
23S 84 2296 2322 U:A No BP   Strong T   0.4 63.4 0.1   0.2 0.1 0.1   0.1 0.1   0.5   2.7 0.5 31.7 848 UA,UC CG,UA,AU 5 11 3 0.38 0.1 0.0 0.1 0.94 0.94 0.34 0.19 0.0 0.55
23S 94 2637 2781 U:A No BP   Strong T 0.9 11.6 51.8 1.7   0.8 0.8 0.2 0.3 1.1 0.6 0.2 0.8   0.8 0.5 28.3 662 CG,UA GC,CG,UA,AU 15 23 9 0.47 0.71 0.92 1.63 0.92 0.93 -0.24 -0.19 0.04 0.46
23S 98 2796 2800 U:A No BP   Strong T 1.7 0.6 4.2 0.6   0.4       0.9           0.1 91.4 693 UA GC,CG,UA,AU 7 7 3 0.43 0.67 0.83 1.5 0.83 0.88 -0.39 -0.38 0.0 0.06
23S 101 2849 2866 U:U No BP 3°: base pair Strong T     0.7   1.8 3.8   0.4 0.2 0.2   0.9 0.4 26.2 1.1 57.5 6.7 447 UG,GG,UU AC,CA,GG,UU 22 18 8 0.4 0.75 0.9 1.65 0.01 0.07 0.7 0.45 0.02 0.4

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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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