Base-pair frequencies

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).
header_format
legacy = entry not yet revised to the v4 layout (no type / conformation).

16 rows where molecule = "5S" and tertiary_type = "3°: base pair" sorted by position_1

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Suggested facets: position_1, position_2, UA, UG, AC, GG, gap, Seq, predominant_types, covarying_types

group_code 4

strength 2

tertiary_type 1

  • 3°: base pair · 16 ✖

molecule 1

header_format 1

conformation 0

Link rowid molecule helix_number position_1 ▼ position_2 pair_note header_format reference_base_pair conformation ai_code tertiary_type header_extra strength group_code GC CG UA AU GU UG AA AC AG CA CC CU GA GG UC UU gap Seq predominant_types covarying_types
121 121 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong 3 1.1   1.6 27.3   1.3 3.9 11.5 11.1   0.2   40.9 0.2 0.5 0.2 0.2 611 AU,AA,AC,AG,GA AU,UG,CC,GA
122 122 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong B     2.6 0.3     3.0 0.3 5.0   0.3   88.1 0.3       302 UA,AA,AG,GA AG,CC,GA
123 123 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong A 52.3 6.8 18.2 4.5 2.3 2.3                 9.1 4.5   44 GC,CG,UA,AU,GU,UG,UC,UU GC,CG,UA,AU
124 124 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong E       57.7     2.7 20.8 18.8                 298 AU,AA,AC,AG  
125 125 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong 3 1.0       0.2   13.7 0.2 0.2 0.2     52.5 32.1       611 AA,GA,GG AC,GA
126 126 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong B         0.3   29.8 0.3 0.7 0.3     1.0 67.5       302 AA,GG AA,GG
127 127 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong A 31.8 11.4 11.4 20.5 4.5 6.8       2.3         2.3 9.1   44 GC,CG,UA,AU,GU,UG,CA,UC,UU GC,CG,UA,AU
128 128 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong E                         99.7 0.3       298 GA  
129 129 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong 3   1.0 98.7     0.2 0.2                     611 UA CG,UA
130 130 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong B     98.7     0.3 0.3                   0.7 302 UA  
131 131 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong A   13.6 86.4                             44 CG,UA CG,UA
132 132 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong E     99.7     0.3                       298 UA  
133 133 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant 3     0.3 0.5     5.2 0.3 92.3 0.7     0.2 0.3     0.2 611 AA,AG AG,CA
134 134 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant B     0.3 1.3     10.6 0.7 85.8       0.3 0.7     0.3 302 AA,AG AG,GA
135 135 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant A     2.3       2.3   86.4 9.1               44 UA,AA,AG,CA AG,CA
136 136 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant E                 100.0                 298 AG  

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CREATE TABLE "basepair_frequency" (
   "molecule" TEXT,
   "helix_number" TEXT,
   "position_1" INTEGER,
   "position_2" INTEGER,
   "pair_note" TEXT,
   "header_format" TEXT,
   "reference_base_pair" TEXT,
   "conformation" TEXT,
   "ai_code" TEXT,
   "tertiary_type" TEXT,
   "header_extra" TEXT,
   "strength" TEXT,
   "group_code" TEXT,
   "GC" REAL,
   "CG" REAL,
   "UA" REAL,
   "AU" REAL,
   "GU" REAL,
   "UG" REAL,
   "AA" REAL,
   "AC" REAL,
   "AG" REAL,
   "CA" REAL,
   "CC" REAL,
   "CU" REAL,
   "GA" REAL,
   "GG" REAL,
   "UC" REAL,
   "UU" REAL,
   "gap" REAL,
   "Seq" INTEGER,
   "predominant_types" TEXT,
   "covarying_types" TEXT
);
CREATE INDEX "idx_basepair_frequency_molecule_position_1_position_2"
    ON "basepair_frequency" ("molecule", "position_1", "position_2");