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 = "C" and molecule = "16S" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, UA, AU, AA, AG, UU, sequences, predominant_types, Xch, Ych, 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 C     0.8     94.4                   4.8   126 UG,UU   0 2 0 0.0 0.0 0.0 0.0 0.01 0.95 2.0 1.66 0.0 0.69
16S 15 375 388 U:G No BP   Weak C     0.6     99.4                       164 UG   0 1 0 0.0 0.0 0.0 0.0 0.01 1.0 2.0 1.95 0.0 0.9
16S 20 582 758 C:C No BP 3°: base pair Strong C   0.6 3.0 1.2   73.8   0.6 0.6   1.8     1.2 15.9 1.2   164 UA,UG,UC AU,UG,CC 8 17 4 0.32 0.12 0.0 0.12 0.05 0.79 1.55 0.98 0.0 0.9
16S 21 606 632 G:U No BP   Weak C 2.4 44.7 27.1 2.4 1.8 12.4 1.2   1.2     0.6     4.1 1.8 0.6 170 GC,CG,UA,AU,UG,UC GC,CG,UA,AU 15 15 5 0.33 0.58 0.77 1.35 0.77 0.91 0.52 0.46 0.0 0.93
16S 30 944 1237 G:C No BP   No Support C 100.0                                 160 GC   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.88
16S 31 960 975 U:A No BP   Weak C     96.9                         3.1   162 UA,UU   0 2 0 0.0 0.0 0.0 0.0 0.97 0.97 2.0 1.8 0.0 0.89
16S 31 961 974 U:A No BP   Weak C     96.9             2.5           0.6   163 UA,CA   1 1 0 0.0 0.0 0.0 0.0 0.97 0.97 1.83 1.95 0.0 0.9
16S 34 1053 1205 G:U No BP   Weak C 0.6       99.4                         163 GU   0 1 0 0.0 0.0 0.0 0.0 0.01 1.0 2.0 1.95 0.0 0.9
16S 34 1064 1192 G:C No BP   Strong C 89.6       6.1   0.6             3.7       163 GC,GU,GG GC,AA 1 8 1 0.22 0.06 0.0 0.06 0.9 0.96 1.95 1.4 0.0 0.9
16S 40 1158 1178 C:G No BP   Weak C   91.0   0.6   3.0 0.6   0.6     0.6         3.6 167 CG,UG CG,AU 0 2 0 0.0 0.11 0.0 0.11 0.95 0.98 1.38 1.71 0.03 0.89
16S 40 1159 1177 U:G No BP   Weak C   3.0 0.6 0.6   90.4     1.2 0.6       0.6   0.6 2.4 167 CG,UG AU,UG,CA 7 3 2 0.4 0.17 0.0 0.17 0.04 0.97 1.39 1.74 0.02 0.9
16S 45 1506 1529 U:G No BP   Weak C           100.0                       108 UG   0 1 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 0.59

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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;