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).

6 rows where conformation = "tWW" and group_code = "B" sorted by position_1

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Suggested facets: reference_base_pair, gap, predominant_types, covarying_types

tertiary_type 2

molecule 2

strength 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
4119 4119 23S 12.1 234 430   v4 U:A tWW       Strong B   8.3 91.3                           0.4 276 CG,UA CG,UA
1872 1872 16S 23.1 722 733   v4 G:G tWW   3°: base pair   Strong B 0.2       0.2 0.1 24.5   2.9       0.5 71.3     0.1 4860 AA,AG,GG AA,GG
5953 5953 23S 43.1 1082 1086   v4 U:A tWW   3°: base pair   Strong B   0.8 98.8                   0.4         247 UA CG,UA
7339 7339 23S 65.1 1782 2586   v4 U:U tWW   3°: pseudoknot   Strong B                     63.1         36.9   236 CC,UU CC,UU
7402 7402 23S 66 1800 1817   v4 C:G tWW   3°: base pair   Strong B   100.0                               262 CG  
7675 7675 23S 69.1 1925 1929   v4 C:G tWW   3°: base pair   Strong B   99.2                   0.4         0.4 241 CG  

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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");