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).

5 rows where conformation = "tSH", group_code = "T" and molecule = "23S" sorted by position_1

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Suggested facets: reference_base_pair, UA, AA, UU

strength 2

molecule 1

header_format 1

group_code 1

conformation 1

tertiary_type 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
3886 3886 23S 7 82 104   v4 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
4096 4096 23S 11 195 200   v4 A:U tSH       Strong T     1.2 95.8 0.1   0.5 0.2                 2.1 840 AU UA,AU
7099 7099 23S 61 1667 1993   v4 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
8268 8268 23S 78 2144 2147   v4 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
9367 9367 23S 97 2746 2758   v4 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

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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");