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).

3 rows where group_code = "B" and tertiary_type = "3°: base triple" sorted by position_1

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tertiary_type 1

  • 3°: base triple · 3 ✖

strength 1

molecule 1

header_format 1

group_code 1

conformation 1

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
5176 5176 23S 35 740 757   v4 C:G cWW   3°: base triple   Strong B   52.5     5.0   2.1 0.7     1.8 0.7     3.2 33.7 0.4 282 CG,GU,AA,UC,UU CG,AA,UU
7724 7724 23S 71 1950 1956   v4 G:U cWW   3°: base triple   Strong B     4.6   94.2         0.8     0.4         240 UA,GU UA,GU
7850 7850 23S 73 2057 2611   v4 G:C cWW   3°: base triple   Strong B 90.3     8.9       0.8                   236 GC,AU GC,AU

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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");