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 molecule = "16S" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, CG, UA, AU, AC, AG, CU, GA, UC, UU, gap, predominant_types, covarying_types, Xch, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

strength 3

tertiary_type 1

molecule 1

  • 16S · 12 ✖

group_code 1

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 1 13 21 U:G No BP   Weak 3   0.1 0.2     99.0     0.1         0.1   0.1 0.4 3097 UG   4 7 1 0.18 0.05 0.0 0.05 0.0 1.0 1.93 1.91 0.0 0.43
16S 15 375 388 U:G No BP   Weak 3   0.1 0.4     98.5     0.1           0.1 0.4 0.3 5867 UG   3 21 1 0.08 0.01 0.0 0.01 0.0 0.99 1.96 1.88 0.0 0.81
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 21 606 632 G:U No BP   Weak 3 2.0 0.8 0.8 1.9 56.4 1.6 0.3 0.1 0.4   0.4 0.3 2.4 9.7 1.5 2.8 18.4 6068 GC,GU,GA,GG,UU GU,UG,AA,CC 67 128 12 0.12 0.1 0.0 0.1 0.07 0.78 0.34 0.02 0.01 0.69
16S 30 944 1237 G:C No BP   No Support 3 99.6             0.1                 0.2 5326 GC   2 1 0 0.0 0.11 0.0 0.11 1.0 1.0 1.96 1.99 0.0 0.74
16S 31 960 975 U:A No BP   Weak 3     72.2     27.5                     0.1 5561 UA,UG   1 14 0 0.0 0.0 0.0 0.0 0.72 1.0 1.97 1.14 0.0 0.77
16S 31 961 974 U:A No BP   Weak 3 0.1 0.1 68.1     20.8         0.2       8.9 1.5 0.3 5546 UA,UG,UC UA,CC 4 37 0 0.0 0.01 0.0 0.01 0.69 0.89 1.94 0.72 0.0 0.77
16S 34 1053 1205 G:U No BP   Weak 3 3.0     0.1 96.4             0.2         0.3 5581 GC,GU   2 13 0 0.0 0.01 0.0 0.01 0.03 1.0 1.95 1.77 0.0 0.78
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
16S 40 1158 1178 C:G No BP   Weak 3   96.4       0.5       0.2 2.2 0.1     0.2   0.2 5825 CG,CC CG,UC 7 9 1 0.12 0.06 0.0 0.06 0.97 0.97 1.91 1.77 0.0 0.81
16S 40 1159 1177 U:G No BP   Weak 3   6.6 0.2 0.1   87.0 1.8 0.4 1.8 0.4   0.1 0.1 0.9 0.1 0.4 0.3 5822 CG,UG UG,AA,CU 65 16 5 0.12 0.14 0.0 0.14 0.07 0.94 1.29 1.71 0.0 0.81
16S 45 1506 1529 U:G No BP   Weak 3   0.9 0.3     96.7     0.1   0.1     0.2 0.7 0.1 0.9 1484 UG UG,CC 6 8 0 0.0 0.03 0.0 0.03 0.01 0.99 1.88 1.8 0.0 0.2

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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;