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).

4 rows where group_code = "E", header_format = "legacy" and molecule = "5S" sorted by position_1

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strength 2

tertiary_type 1

molecule 1

header_format 1

  • legacy · 4 ✖

group_code 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
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  
128 128 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong E                         99.7 0.3       298 GA  
132 132 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong E     99.7     0.3                       298 UA  
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");