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.

35 rows where conformation = "tSH" and molecule = "23S" sorted by position_1

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

group_code 7

strength 2

molecule 1

  • 23S · 35 ✖

conformation 1

  • tSH · 35 ✖

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
23S 7 82 104 U:A tSH   Strong T   0.1 4.3 0.8 35.6 1.2 0.1 0.1 0.1 0.4 6.2   3.6 0.8 2.6 0.3 43.7 745 UA,GU,CC,GA,UC UA,GU,AG,CC 24 27 9 0.35 0.51 0.82 1.33 0.09 0.75 -0.57 -0.66 0.08 0.4
23S 7 82 104 U:A tSH   Strong 3   0.2 5.1   40.2 1.9   0.2   0.7 10.7   6.3 1.2 4.6   28.8 413 UA,GU,CC,GA,UC UA,GU,CC 16 21 5 0.27 0.51 0.79 1.29 0.07 0.67 -0.04 -0.57 0.12 0.47
23S 7 82 104 U:A tSH   Strong B   0.4 8.1   60.9 2.7   0.4     17.1   2.3 1.9 5.8   0.4 258 UA,GU,UG,CC,GA,UC UA,GU,CC 7 16 3 0.26 0.65 0.86 1.51 0.09 0.72 0.66 0.52 0.0 0.79
23S 7 82 104 U:A tSH   Strong A         25.0         8.3     55.6   11.1     36 GU,CA,GA,UC GA,UC 4 5 2 0.44 0.25 0.67 0.92 0.0 0.25 1.1 0.73 0.0 0.88
23S 7 82 104 U:A tSH   Strong C     2.0 2.0 91.8           2.0   1.0 1.0       98 UA,AU,GU,CC UA,GU,CC 4 4 3 0.75 0.5 0.96 1.46 0.04 0.96 1.57 1.58 0.0 0.95
23S 7 82 104 U:A tSH   Strong E           0.8                     99.1 119     5 0 0 0.0 0.0 0.0 0.0 0.0 1.0 -0.09 -0.05 0.0 0.0
23S 7 82 104 U:A tSH   Strong M     3.8 1.7 3.8 0.4 0.4   0.4             0.9 88.4 234 UA,GU UA,GU,AG 4 2 1 0.33 0.56 0.7 1.26 0.48 0.85 -0.56 -0.45 0.01 0.09
23S 11 195 200 A:U tSH   Strong T     1.2 95.8 0.1   0.5 0.2                 2.1 840 AU UA,AU 4 5 3 0.67 0.59 0.99 1.58 0.99 0.99 1.69 1.66 0.0 0.79
23S 11 195 200 A:U tSH   Strong 3       99.6 0.2                       0.2 486 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 1.93 1.98 0.0 0.77
23S 11 195 200 A:U tSH   Strong B       100.0                           271 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.83
23S 11 195 200 A:U tSH   Strong A       100.0                           36 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.88
23S 11 195 200 A:U tSH   Strong C       100.0                           100 AU   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.97
23S 11 195 200 A:U tSH   Strong E       98.9 0.6                       0.6 179 AU   0 0 0 0.0 0.0 0.0 0.0 0.99 1.0 1.84 1.94 0.0 0.68
23S 11 195 200 A:U tSH   Strong M     3.9 87.0     1.6 0.8                 6.7 254 UA,AU UA,AU 4 5 3 0.67 0.62 0.97 1.6 0.97 0.97 1.28 1.15 0.0 0.76
23S 61 1667 1993 G:U tSH   Significant T 0.1   1.2 0.6 97.3   0.1           0.1 0.1   0.1 0.2 807 GU UA,GU 4 6 2 0.4 0.5 0.99 1.49 0.02 0.99 1.81 1.87 0.0 0.77
23S 61 1667 1993 G:U tSH   Significant 3 0.2     0.2 99.3                     0.2   430 GU   1 1 0 0.0 0.0 0.0 0.0 0.01 1.0 1.96 1.98 0.0 0.68
23S 61 1667 1993 G:U tSH   Significant B 0.4       99.2                     0.4   236 GU   0 1 0 0.0 0.0 0.0 0.0 0.0 1.0 1.96 1.96 0.0 0.72
23S 61 1667 1993 G:U tSH   Significant A         100.0                         41 GU   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 1.0
23S 61 1667 1993 G:U tSH   Significant C         100.0                         101 GU   0 0 0 0.0 0.0 0.0 0.0 0.0 1.0 2.0 2.0 0.0 0.98
23S 61 1667 1993 G:U tSH   Significant E       0.7 99.3                         153 GU   1 0 0 0.0 0.0 0.0 0.0 0.01 1.0 1.95 2.0 0.0 0.58
23S 61 1667 1993 G:U tSH   Significant M     3.6 1.4 93.1   0.4           0.4 0.4     0.7 276 UA,GU UA,GU 3 5 2 0.5 0.59 0.97 1.56 0.05 0.99 1.57 1.73 0.01 0.88
23S 78 2144 2147 G:A tSH   Strong T 0.1 3.2 1.2   0.2 21.9 0.4 0.5 0.2 0.5   0.5 32.4 0.4 0.4 0.7 37.6 848 CG,UG,GA UG,AC,CU,GA 27 21 14 0.58 0.76 0.89 1.65 0.07 0.43 -0.57 -0.49 0.0 0.51
23S 78 2144 2147 G:A tSH   Strong 3 0.2 5.9 0.9   0.5 20.8   0.2       0.7 60.0 0.7 0.2   9.7 438 CG,UG,GA UG,AC,CU,GA 18 16 10 0.59 0.72 0.91 1.63 0.08 0.31 0.32 0.4 0.01 0.63
23S 78 2144 2147 G:A tSH   Strong B 0.4   1.2     4.5             93.8         242 UG,GA UG,GA 3 3 2 0.67 0.73 0.98 1.72 0.02 0.06 1.64 1.7 0.0 0.74
23S 78 2144 2147 G:A tSH   Strong A           73.2             26.8         41 UG,GA UG,GA 2 2 2 1.0 1.0 1.0 2.0 0.0 0.73 1.16 1.16 0.0 1.0
23S 78 2144 2147 G:A tSH   Strong C   1.0       93.1     2.0           2.0 2.0   101 UG,AG,UC,UU   2 1 1 0.67 0.0 0.0 0.0 0.01 0.94 1.78 1.72 0.0 0.98
23S 78 2144 2147 G:A tSH   Strong E   16.8 0.6   1.3 32.3   0.6       1.9 16.1 1.9 0.6   27.7 155 CG,UG,GA UG,AC,CU,GA 13 11 6 0.5 0.47 0.7 1.17 0.24 0.7 -0.51 -0.26 0.01 0.43
23S 78 2144 2147 G:A tSH   Strong M     1.9     0.3 1.0 1.0   1.3   0.3 3.9     1.3 89.0 309 GA AC,GA,UU 7 4 3 0.55 0.32 0.56 0.88 0.18 0.21 -0.53 -0.42 0.01 0.11
23S 97 2746 2758 U:A tSH   Strong T   0.3 94.4 1.1 0.3 0.6 0.1     0.3         1.0 0.1 1.7 697 UA CG,UA,AU 8 11 6 0.63 0.37 0.97 1.35 0.97 0.98 1.67 1.57 0.0 0.66
23S 97 2746 2758 U:A tSH   Strong 3     100.0                             399 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.63
23S 97 2746 2758 U:A tSH   Strong B     100.0                             227 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 1.95 0.0 0.7
23S 97 2746 2758 U:A tSH   Strong A     100.0                             41 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 1.0
23S 97 2746 2758 U:A tSH   Strong C     96.6             3.4               58 UA,CA   1 0 0 0.0 0.0 0.0 0.0 0.97 0.97 1.78 2.0 0.0 0.56
23S 97 2746 2758 U:A tSH   Strong E     100.0                             131 UA   0 0 0 0.0 0.0 0.0 0.0 1.0 1.0 2.0 2.0 0.0 0.5
23S 97 2746 2758 U:A tSH   Strong M   0.8 85.0 2.9 0.8 1.7 0.4               2.9 0.4 5.0 240 UA,AU,UC CG,UA,AU 7 11 6 0.67 0.38 0.93 1.31 0.93 0.96 1.29 1.02 0.0 0.73

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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;