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.

31 rows where conformation = "No BP" and group_code = "M" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, 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

strength 5

tertiary_type 2

molecule 2

group_code 1

conformation 1

  • No BP · 31 ✖
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 M     50.2 0.1   38.6 0.4   8.1 0.7     0.4 0.1   0.6 0.6 669 UA,UG,AG UA,AG 10 59 2 0.06 0.16 0.0 0.16 0.51 0.9 1.4 0.89 0.0 0.57
16S 15 375 388 U:G No BP   Weak M 0.2 0.4 5.1     92.9 0.4   0.1         0.2   0.1 0.6 829 UA,UG GC,UG,AA 7 8 3 0.4 0.09 0.0 0.09 0.06 0.99 1.82 0.84 0.11 0.71
16S 20 582 758 C:C No BP 3°: base pair Strong M 0.1 0.3 45.6 0.7 0.2 9.1 7.2 1.1 0.7 3.2 0.1     0.1 0.5 0.1 31.0 886 UA,UG,AA,CA CG,UA,GU,AC 31 39 5 0.14 0.07 0.0 0.07 0.68 0.81 -0.31 0.37 0.2 0.53
16S 21 606 632 G:U No BP   Weak M   0.1 0.6 0.2 2.0 0.2 0.4   0.2 0.1     0.1     0.4 95.8 1021 GU UA,GU,AG 7 5 1 0.17 0.01 0.0 0.01 0.01 0.03 -0.25 -0.23 0.0 0.0
23S 33 687 775 C:G No BP   Weak M   89.7 0.8 3.1   4.2   0.4 0.4       0.4 0.4     0.8 262 CG,AU,UG CG,UA,AU 8 4 0 0.0 0.4 0.94 1.34 0.94 0.98 1.34 1.62 0.01 0.83
23S 33 688 774 U:G No BP   Significant M     90.1 5.0 0.4 1.5       0.4         1.1 0.8 0.8 262 UA,AU UA,AU 4 7 3 0.55 0.54 0.96 1.5 0.96 0.98 1.56 1.41 0.01 0.83
23S 34 703 729 U:G No BP   Weak M   6.1 0.4 0.4 0.4 48.7 0.8   17.1     0.4   1.9     24.0 263 CG,UG,AG GU,UG,AA 20 4 1 0.08 0.04 0.0 0.04 0.09 0.73 -0.3 0.73 0.04 0.64
16S 30 944 1237 G:C No BP   No Support M 98.4       1.1     0.2         0.1       0.3 1152 GC   1 3 0 0.0 0.0 0.0 0.0 0.99 1.0 1.95 1.9 0.0 0.99
16S 31 960 975 U:A No BP   Weak M     6.5 89.1   0.6 0.9 0.3 0.6   0.1 0.3     1.0 0.7 0.1 1153 UA,AU UA,AU,CC 9 16 1 0.08 0.61 0.96 1.56 0.96 0.96 1.53 1.43 0.0 0.99
16S 31 961 974 U:A No BP   Weak M 0.6   54.6 0.6 0.4 0.1 1.5 0.1   3.3 0.3 12.3 0.1   8.9 17.3   1151 UA,CA,CU,UC,UU GC,UA,CU 43 61 4 0.08 0.28 0.67 0.96 0.56 0.56 1.14 0.69 0.0 0.99
16S 34 1053 1205 G:U No BP   Weak M 0.5     90.9 7.8     0.5       0.1       0.1 0.1 1152 AU,GU GC,AU 5 6 0 0.0 0.06 0.0 0.06 0.92 0.99 1.55 1.9 0.0 0.99
16S 34 1064 1192 G:C No BP   Strong M 38.0 0.1 12.9 3.0 1.0   1.0 0.2 0.3 3.9 0.7   15.0 0.3 21.7 1.6 0.5 1150 GC,UA,AU,CA,GA,UC GC,CG,UA,AU 43 31 9 0.24 0.26 0.54 0.8 0.54 0.55 0.55 0.73 0.0 0.99
16S 40 1158 1178 C:G No BP   Weak M 0.1 2.5 2.3 0.3     0.2   0.1     0.3   0.2   0.4 93.5 1152 CG,UA GC,CG,UA,AU 5 145 3 0.04 0.03 0.0 0.03 0.05 0.05 -0.32 0.02 0.0 0.0
16S 40 1159 1177 U:G No BP   Weak M   0.3 0.3 0.2 0.1 2.5 0.1   0.1 0.3 2.0 0.2   0.2   0.4 93.6 1152 UG,CC AU,UG,CC 8 148 4 0.05 0.02 0.0 0.02 0.01 0.03 -0.32 0.0 0.0 0.0
23S 55 1420 1578 A:U No BP   Strong M   1.1 1.4 2.2         0.4               94.9 276 AU CG,UA,AU 2 2 2 1.0 0.88 0.93 1.8 0.93 0.93 -0.29 -0.31 0.0 0.04
16S 45 1506 1529 U:G No BP   Weak M     15.6     83.0               0.1 0.1 0.9 0.1 672 UA,UG   1 10 0 0.0 0.0 0.0 0.0 0.16 0.99 1.99 1.27 0.0 0.58
23S 59 1527 1544 G:A No BP 3°: base pair Strong M       0.4                         99.7 276     0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 -0.03 -0.06 0.0 0.0
23S 66 1799 1820 G:U No BP   Weak M 0.7   0.4 1.8 89.0                       8.1 283 GU UA,GU 3 3 1 0.33 0.12 0.0 0.12 0.03 1.0 1.27 1.37 0.0 0.83
23S 69 1911 1919 U:A No BP   Weak M     96.1                           3.8 311 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.71 1.71 0.0 0.96
23S 71 1935 1962 G:C No BP   Strong M 29.4     45.2 11.9   0.6 6.1 2.9       0.6 1.6 0.6 1.0   310 GC,AU,GU,AC,AG GC,AU 16 19 6 0.34 0.54 0.74 1.28 0.74 0.86 0.91 0.73 0.0 0.99
23S 74 2075 2434 U:A No BP   Weak M   0.3 94.8     1.0 0.6         0.3     0.6 2.3   309 UA,UU CG,UA 4 7 3 0.55 0.06 0.0 0.06 0.95 0.96 1.85 1.67 0.0 0.99
23S 76.1 2112 2169 G:A No BP 3°: pseudoknot Strong M   0.6 2.6       2.6   1.6 0.3     5.2   0.3   86.7 309 UA,AA,GA AG,GA,UC 5 2 2 0.57 0.24 0.54 0.78 0.24 0.24 -0.54 -0.42 0.0 0.13
23S 76.1 2113 2170 U:A No BP 3°: pseudoknot Strong M   1.0 7.8     1.6 0.3     1.0     0.6       87.7 309 UA CG,UA 3 2 0 0.0 0.21 0.71 0.93 0.71 0.84 -0.42 -0.42 0.01 0.12
23S 76.1 2117 2172 A:U No BP 3°: pseudoknot Strong M 1.6   1.6 5.5 0.3   1.9   1.3       1.0       86.7 309 AU GC,UA,AU 4 7 3 0.55 0.42 0.66 1.07 0.66 0.68 -0.47 -0.54 0.0 0.13
23S 80 2249 2255 U:G No BP   Weak M     10.7     87.1       1.6         0.3 0.3   309 UA,UG UG,CA 1 8 1 0.22 0.12 0.0 0.12 0.11 0.98 1.88 1.4 0.0 0.99
23S 84 2296 2322 U:A No BP   Strong M   1.0 10.0 0.3   0.6 0.3       0.3       0.3 0.3 86.7 309 UA CG,UA,AU 4 6 3 0.6 0.4 0.85 1.25 0.85 0.9 -0.4 -0.46 0.01 0.13
23S 90 2511 2577 U:A No BP   No Support M     97.3             2.7               263 UA,CA   2 0 0 0.0 0.0 0.0 0.0 0.97 0.97 1.84 2.0 0.0 0.84
23S 94 2637 2781 U:A No BP   Strong M 0.9   7.9 3.5   0.4 1.8   0.9       1.8     0.4 82.3 227 UA,AU GC,UA,AU 5 8 2 0.31 0.46 0.7 1.16 0.7 0.72 -0.58 -0.62 0.12 0.13
23S 98 2796 2800 U:A No BP   Strong M                                 100.0 219     0 0 0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0
23S 99 2808 2891 G:U No BP 3°: base pair ??? M     4.5 2.3     13.6 2.3 4.5             2.3 70.4 44 UA,AU,AA,AC,AG,UU AA,UU 0 8 0 0.0 0.14 0.0 0.14 0.23 0.23 -0.32 -0.6 0.6 0.04
23S 101 2849 2866 U:U No BP 3°: base pair Strong M     4.4     6.7   4.4       2.2     8.9 31.1 42.2 45 UA,UG,AC,CU,UC,UU AC,UU 4 3 0 0.0 0.17 0.0 0.17 0.08 0.19 0.16 -0.75 0.03 0.08

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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;