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.

28 rows where conformation = "No BP" and tertiary_type = "3°: base pair" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, reference_base_pair, GC, UA, AU, GU, UG, AC, AG, CA, CU, GG, UU, sequences, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, XCons, YCons, DfDel, PNuc

group_code 7

strength 2

molecule 2

tertiary_type 1

  • 3°: base pair · 28 ✖

conformation 1

  • No BP · 28 ✖
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 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 20 582 758 C:C No BP 3°: base pair Strong B 0.1 11.2 2.6     68.4   0.1   0.2 15.6 0.8     0.6 0.3   4697 CG,UA,UG,CC UG,CC 54 47 17 0.34 0.5 0.84 1.34 0.14 0.82 1.11 1.08 0.0 0.8
16S 20 582 758 C:C No BP 3°: base pair Strong A     1.8     94.9                 3.2     217 UG,UC   0 4 0 0.0 0.0 0.0 0.0 0.02 0.97 2.0 1.52 0.0 0.82
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 20 582 758 C:C No BP 3°: base pair Strong E 0.3   0.9     1.2   0.2             97.4   0.1 1032 UC   2 4 0 0.0 0.0 0.0 0.0 0.01 0.02 1.95 1.82 0.0 0.98
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
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 59 1527 1544 G:A No BP 3°: base pair Strong 3 2.9 32.6 4.7 0.4 13.4   0.8   0.2       33.8 0.2   0.4 10.4 485 GC,CG,UA,GU,GA CG,AU,GA 15 10 6 0.48 0.59 0.75 1.34 0.45 0.6 0.12 -0.1 0.0 0.69
23S 59 1527 1544 G:A No BP 3°: base pair Strong B 3.4 13.6 5.7 0.4 2.7   1.5           62.1     0.8 9.9 264 GC,CG,UA,GU,GA CG,GA,UU 9 3 1 0.17 0.51 0.85 1.36 0.26 0.29 0.36 0.4 0.0 0.73
23S 59 1527 1544 G:A No BP 3°: base pair Strong A         73.2                       26.8 41 GU   0 1 0 0.0 0.0 0.0 0.0 0.0 1.0 0.57 0.56 0.07 0.73
23S 59 1527 1544 G:A No BP 3°: base pair Strong C 2.0 4.0 9.0 11.0 1.0 3.0 5.0   1.0 24.0 2.0 1.0 8.0 1.0 1.0 1.0 26.0 100 GC,CG,UA,AU,UG,AA,CA,CC,GA GC,AU,UG,CA 14 6 6 0.6 0.32 0.54 0.86 0.35 0.41 -0.63 -0.43 0.05 0.72
23S 59 1527 1544 G:A No BP 3°: base pair Strong E 2.8 67.8 4.4 0.6 15.6       0.6         0.6     7.8 180 GC,CG,UA,GU CG,UA,GU 6 6 5 0.83 0.82 0.95 1.77 0.82 0.99 0.46 0.57 0.01 0.63
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 99 2808 2891 G:U No BP 3°: base pair ??? T 0.7 1.7 39.9 7.6 9.7 4.3 1.7 0.2 1.4 3.3     2.4 0.5   1.0 25.5 421 UA,AU,GU,UG,CA,GA CG,UA,GU,AC 21 18 3 0.15 0.34 0.69 1.03 0.67 0.86 -0.74 -0.05 0.23 0.3
23S 99 2808 2891 G:U No BP 3°: base pair ??? 3 0.9 2.2 39.7 7.4 12.6 4.9 0.3   1.2 4.3     3.1     0.6 22.7 325 CG,UA,AU,GU,UG,CA,GA CG,UA,GU 17 9 2 0.15 0.39 0.7 1.1 0.65 0.88 -0.42 0.05 0.08 0.4
23S 99 2808 2891 G:U No BP 3°: base pair ??? B     63.1 10.8 19.7 3.9             0.5       2.0 203 UA,AU,GU,UG UA,GU 10 3 0 0.0 0.56 0.84 1.41 0.75 0.99 0.66 0.74 0.0 0.61
23S 99 2808 2891 G:U No BP 3°: base pair ??? A 7.9 2.6 2.6       2.6     36.8     13.2       34.3 38 GC,CG,UA,AA,CA,GA GC,CA 5 1 1 0.33 0.27 0.68 0.95 0.2 0.2 0.43 -0.11 0.32 0.61
23S 99 2808 2891 G:U No BP 3°: base pair ??? C     71.2 13.5   3.8               3.8   1.9 5.7 52 UA,AU,UG,GG UA,AU,GG 4 1 1 0.4 0.75 0.94 1.69 0.9 0.94 0.85 0.33 0.04 0.48
23S 99 2808 2891 G:U No BP 3°: base pair ??? E   7.1   2.4 1.2 9.5     4.8       4.8     2.4 67.9 84 CG,AU,UG,AG,GA,UU AU,UG,GA 2 5 1 0.29 0.32 0.52 0.83 0.3 0.63 -0.85 0.46 0.26 0.1
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 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
23S 101 2849 2866 U:U No BP 3°: base pair Strong 3     0.3   2.0 2.6     0.3 0.3   0.9 0.6 30.4 0.3 59.4 3.2 352 GU,UG,GG,UU CA,GG,UU 16 12 7 0.5 0.82 0.93 1.75 0.0 0.05 0.82 0.7 0.02 0.54
23S 101 2849 2866 U:U No BP 3°: base pair Strong B         3.4 1.5     0.5     1.0 1.0 51.7   41.0   205 GU,GG,UU GG,UU 12 11 7 0.61 0.85 0.93 1.77 0.0 0.05 0.9 0.89 0.0 0.63
23S 101 2849 2866 U:U No BP 3°: base pair Strong A     2.6     10.5                   78.9 7.9 38 UA,UG,UU   0 1 0 0.0 0.0 0.0 0.0 0.03 0.14 2.0 0.8 0.07 0.85
23S 101 2849 2866 U:U No BP 3°: base pair Strong C         2.0 10.0               20.0   68.0   50 GU,UG,GG,UU GG,UU 2 3 1 0.4 0.62 0.88 1.5 0.0 0.12 1.24 1.12 0.0 0.48
23S 101 2849 2866 U:U No BP 3°: base pair Strong E           1.8       0.9   0.9   0.9 0.9 87.2 7.4 109 UU CA,GG,UU 4 0 0 0.0 0.33 0.96 1.29 0.0 0.02 1.34 1.06 0.03 0.38
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;