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.

42 rows where conformation = "tWW" sorted by position_1

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: helix_number, position_1, position_2, reference_base_pair, GC, CG, UA, GU, UG, AA, AC, AG, CA, CU, GA, UU, gap, predominant_types, covarying_types, Xch, Ych, PE, PES, Cov1, Cov3, C1_C3, WC, WCGU, DfDel, PNuc

group_code 7

tertiary_type 2

molecule 2

strength 1

conformation 1

  • tWW · 42 ✖
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
23S 12.1 234 430 U:A tWW   Strong T   3.8 69.1 0.1   0.8 0.7 0.1 0.1 0.2     0.1     0.2 24.7 866 CG,UA CG,UA,AU 10 12 6 0.55 0.63 0.97 1.6 0.97 0.98 0.39 0.44 0.01 0.62
23S 12.1 234 430 U:A tWW   Strong 3   4.7 92.6     1.2 0.6   0.2 0.2             0.6 512 CG,UA CG,UA 7 7 5 0.71 0.69 0.98 1.66 0.98 0.99 1.59 1.68 0.01 0.81
23S 12.1 234 430 U:A tWW   Strong B   8.3 91.3                           0.4 276 CG,UA CG,UA 5 6 5 0.91 1.0 1.0 2.0 1.0 1.0 1.54 1.58 0.0 0.84
23S 12.1 234 430 U:A tWW   Strong A   2.8 91.7           2.8 2.8               36 CG,UA,AG,CA CG,UA 1 0 0 0.0 0.33 0.94 1.28 0.94 0.94 1.51 1.7 0.0 0.88
23S 12.1 234 430 U:A tWW   Strong C     100.0                             100 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.97
23S 12.1 234 430 U:A tWW   Strong E     94.5     3.0 1.5                   1.0 200 UA,UG   1 1 0 0.0 0.0 0.0 0.0 0.95 0.98 1.79 1.82 0.01 0.75
23S 12.1 234 430 U:A tWW   Strong M   3.5 9.4 0.4   0.4 1.2 0.4   0.4     0.4     0.8 83.1 254 CG,UA CG,UA,AU 3 5 1 0.25 0.53 0.79 1.32 0.79 0.81 -0.63 -0.53 0.04 0.14
16S 23.1 722 733 G:G tWW 3°: base pair Strong T 0.2 0.7 3.0 1.6 0.9 0.7 29.5 0.3 5.1 0.4 0.1 0.1 1.3 55.1 0.1 0.2 0.7 7189 UA,AA,AG,GG AA,CC,GG,UU 166 127 52 0.35 0.68 0.85 1.53 0.06 0.07 0.69 0.8 0.0 0.84
16S 23.1 722 733 G:G tWW 3°: base pair Strong 3 0.1   2.1 0.1 0.7 0.1 29.7 0.1 2.4       1.4 63.1     0.1 6134 UA,AA,AG,GG AA,GG 59 60 38 0.64 0.81 0.93 1.74 0.02 0.03 0.95 0.98 0.0 0.85
16S 23.1 722 733 G:G tWW 3°: base pair Strong B 0.2       0.2 0.1 24.5   2.9       0.5 71.3     0.1 4860 AA,AG,GG AA,GG 39 43 31 0.76 0.86 0.96 1.82 0.0 0.01 1.13 1.13 0.0 0.83
16S 23.1 722 733 G:G tWW 3°: base pair Strong A         0.8   20.3   0.4         78.4       241 AA,GG AA,GG 4 6 4 0.8 0.94 0.99 1.93 0.0 0.01 1.26 1.21 0.0 0.91
16S 23.1 722 733 G:G tWW 3°: base pair Strong C           0.6 75.4   1.8         21.6     0.6 167 AA,GG AA,GG 6 8 6 0.86 0.9 0.98 1.88 0.0 0.01 1.13 1.14 0.0 0.91
16S 23.1 722 733 G:G tWW 3°: base pair Strong E 0.1 0.1 12.2 0.3 3.3 0.1 56.2 0.2 0.7       5.9 20.6     0.3 1033 UA,GU,AA,GA,GG AA,GG 16 11 3 0.22 0.47 0.77 1.25 0.13 0.16 0.64 0.98 0.0 0.98
16S 23.1 722 733 G:G tWW 3°: base pair Strong M 0.2 5.2 10.2 12.1 1.8 4.4 19.3 1.9 24.0 3.3 0.9 1.0 1.2 6.0 1.1 2.8 4.5 896 CG,UA,AU,UG,AA,AG,CA,GG,UU UA,GU,AG,CC 101 59 8 0.1 0.18 0.0 0.18 0.29 0.35 0.16 0.15 0.02 0.74
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong T 0.1 26.9 45.2 1.0 0.1 0.1 0.1     0.1     0.1 0.1 0.3 0.8 24.8 870 CG,UA GC,CG,UA,AU 22 13 8 0.46 0.94 0.97 1.91 0.97 0.98 0.4 -0.04 0.12 0.62
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong 3   46.9 52.3     0.2             0.2       0.4 495 CG,UA CG,UA 6 4 4 0.8 0.99 1.0 1.99 1.0 1.0 0.94 0.98 0.0 0.78
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong B   0.8 98.8                   0.4         247 UA CG,UA 2 1 1 0.67 0.67 1.0 1.66 1.0 1.0 1.89 1.93 0.0 0.76
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong A   59.5 40.5                             37 CG,UA CG,UA 3 3 3 1.0 1.0 1.0 2.0 1.0 1.0 1.03 1.03 0.0 0.9
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong C     98.0                       2.0     100 UA,UC   0 1 0 0.0 0.0 0.0 0.0 0.98 0.98 2.0 1.86 0.0 0.97
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong E   98.6       0.5                     1.0 211 CG   1 0 0 0.0 0.0 0.0 0.0 0.99 1.0 1.86 1.95 0.0 0.8
23S 43.1 1082 1086 U:A tWW 3°: base pair Strong M 0.4 0.7 13.1 3.3 0.4   0.4     0.4       0.4 0.4 2.5 78.2 275 UA,AU,UU GC,CG,UA,AU 16 8 4 0.33 0.5 0.8 1.3 0.8 0.82 0.16 -0.62 0.6 0.19
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong T   0.1 2.1             0.1 60.3         36.9 0.5 770 UA,CC,UU CC,UU 13 19 12 0.75 0.94 0.98 1.92 0.02 0.02 1.02 0.86 0.0 0.73
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong 3                     37.9         61.9 0.2 412 CC,UU CC,UU 7 7 7 1.0 1.0 1.0 2.0 0.0 0.0 1.01 1.05 0.0 0.65
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong B                     63.1         36.9   236 CC,UU CC,UU 4 4 4 1.0 1.0 1.0 2.0 0.0 0.0 1.08 1.04 0.0 0.72
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong A                     17.1         82.9   41 CC,UU CC,UU 3 3 3 1.0 1.0 1.0 2.0 0.0 0.0 1.34 1.34 0.0 1.0
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong C                     100.0             95 CC   0 0 0 0.0 0.0 0.0 0.0 0.0 0.0 2.0 2.0 0.0 0.92
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong E                               99.3 0.7 135 UU   0 0 0 0.0 0.0 0.0 0.0 0.0 0.0 1.93 2.0 0.0 0.51
23S 65.1 1782 2586 U:U tWW 3°: pseudoknot Strong M   0.4 6.1             0.4 81.0         11.0 1.2 263 UA,CC,UU CC,UU 6 11 5 0.59 0.62 0.93 1.55 0.07 0.07 1.31 1.02 0.01 0.83
23S 66 1800 1817 C:G tWW 3°: base pair Strong T   64.6 1.1 16.5 0.1 0.1 0.4 0.2 0.1 8.2 0.4 0.2         7.9 842 CG,AU,CA CG,UA,AU 6 23 4 0.28 0.64 0.89 1.54 0.89 0.9 0.7 0.38 0.0 0.74
23S 66 1800 1817 C:G tWW 3°: base pair Strong 3   66.6 0.9 29.5 0.2 0.2 0.4 0.4 0.2               1.5 458 CG,AU CG,UA,AU 1 5 2 0.67 0.95 0.98 1.94 0.98 0.99 0.9 0.85 0.0 0.72
23S 66 1800 1817 C:G tWW 3°: base pair Strong B   100.0                               262 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.96 2.0 0.0 0.8
23S 66 1800 1817 C:G tWW 3°: base pair Strong A   100.0                               41 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 66 1800 1817 C:G tWW 3°: base pair Strong C   39.6               60.4               101 CG,CA   0 7 0 0.0 0.0 0.0 0.0 0.4 0.4 2.0 1.03 0.0 0.98
23S 66 1800 1817 C:G tWW 3°: base pair Strong E   1.3 5.8 87.1 0.6 0.6 1.3 1.3 0.6               1.3 155 UA,AU CG,UA,AU 1 5 2 0.67 0.61 0.95 1.56 0.95 0.97 1.5 1.24 0.01 0.58
23S 66 1800 1817 C:G tWW 3°: base pair Strong M   70.3 1.8 1.4     0.4     2.8 1.1 0.7         21.6 283 CG,CA CG,UA,AU 5 11 2 0.25 0.39 0.94 1.33 0.94 0.94 0.56 0.44 0.0 0.71
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong T   74.5 1.2 0.5   23.3           0.1       0.2 0.1 848 CG,UG CG,UA,AU 7 7 3 0.43 0.07 0.0 0.07 0.76 1.0 1.14 1.83 0.0 0.81
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong 3   54.8       44.7           0.2         0.2 436 CG,UG   0 2 0 0.0 0.0 0.0 0.0 0.55 1.0 0.98 1.95 0.0 0.69
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong B   99.2                   0.4         0.4 241 CG   0 1 0 0.0 0.0 0.0 0.0 1.0 1.0 1.95 1.91 0.0 0.74
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong A           100.0                       41 UG   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 1.0
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong C   100.0                               101 CG   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.98
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong E           99.4                     0.6 155 UG   0 1 0 0.0 0.0 0.0 0.0 0.0 1.0 1.93 1.94 0.0 0.59
23S 69.1 1925 1929 C:G tWW 3°: base pair Strong M   93.9 3.2 1.3   1.0                   0.6   311 CG,UA CG,UA,AU 6 5 3 0.55 0.74 0.98 1.72 0.98 0.99 1.62 1.66 0.0 1.0

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;