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).

7 rows where conformation = "tWS" sorted by position_1

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Suggested facets: UG, AA, CA, GA, UU, predominant_types

group_code 7

strength 1

molecule 1

header_format 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
288 288 16S 3 37 547   v4 U:A tWS       Weak T     97.5 0.1   0.7 0.2     0.9     0.2   0.1 0.1 0.3 5551 UA UA,AU
289 289 16S 3 37 547   v4 U:A tWS       Weak 3     98.6     0.7 0.1     0.2     0.1     0.1 0.2 4665 UA  
290 290 16S 3 37 547   v4 U:A tWS       Weak B     98.7     0.7 0.1     0.2     0.1     0.1 0.1 3570 UA  
291 291 16S 3 37 547   v4 U:A tWS       Weak A     100.0                             183 UA  
292 292 16S 3 37 547   v4 U:A tWS       Weak C     96.7       1.3     0.7     0.7       0.7 152 UA  
293 293 16S 3 37 547   v4 U:A tWS       Weak E     98.0     0.8       0.1         0.1 0.1 0.9 912 UA  
294 294 16S 3 37 547   v4 U:A tWS       Weak M 0.1 0.1 90.8 0.5   0.5 0.5   0.3 5.3   0.1 0.5   0.1 0.4 0.5 738 UA,CA GC,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");