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.

15 rows where conformation = "No BP", group_code = "C" and strength = "Weak" sorted by position_1

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: helix_number, reference_base_pair, UA, AU, UG, AG, CU, UU, sequences, predominant_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

molecule 2

strength 1

  • Weak · 15 ✖

group_code 1

conformation 1

  • No BP · 15 ✖

tertiary_type 0

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 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
23S 33 687 775 C:G No BP   Weak C   95.0             2.0     3.0           100 CG,AG,CU   1 2 0 0.0 0.0 0.0 0.0 0.95 0.95 1.86 1.81 0.0 0.97
23S 34 703 729 U:G No BP   Weak C           100.0                       100 UG   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 0.97
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 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
23S 66 1799 1820 G:U No BP   Weak C 1.0       96.0               3.0         101 GU,GA   0 3 0 0.0 0.0 0.0 0.0 0.01 0.97 2.0 1.73 0.0 0.98
23S 69 1911 1919 U:A No BP   Weak C     100.0                             101 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.98
23S 74 2075 2434 U:A No BP   Weak C     100.0                             99 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.96
23S 80 2249 2255 U:G No BP   Weak C     2.0     98.0                       102 UA,UG   0 2 0 0.0 0.0 0.0 0.0 0.02 1.0 2.0 1.86 0.0 0.99

Advanced export

JSON shape: default, array, newline-delimited

CSV options: 

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;