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 = "cWS" and header_format = "v4" sorted by position_1

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Suggested facets: GC, CG, AU, AA, UC, gap, predominant_types, covarying_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
2458 2458 16S 33 996 1045   v4 A:C cWS       Strong T 0.1 0.2 2.3 0.6     0.1 62.4     0.2       0.7 0.5 32.9 6974 UA,AC CG,UA,AC
2459 2459 16S 33 996 1045   v4 A:C cWS       Strong 3 0.1 0.2 2.8 0.6     0.1 73.5 0.1           0.1 0.6 21.8 5664 UA,AC CG,UA,AC
2460 2460 16S 33 996 1045   v4 A:C cWS       Strong B 0.1 0.3 3.5 0.8     0.1 94.0 0.1           0.1 0.8   4429 UA,AC CG,UA,AC
2461 2461 16S 33 996 1045   v4 A:C cWS       Strong A                                 100.0 202    
2462 2462 16S 33 996 1045   v4 A:C cWS       Strong C 0.6     1.2     1.9 91.4             1.9   3.1 162 AC  
2463 2463 16S 33 996 1045   v4 A:C cWS       Strong E                                 100.0 1029    
2464 2464 16S 33 996 1045   v4 A:C cWS       Strong M 0.1   0.4 0.3       3.4     0.9       3.6 0.1 91.2 1153 AC,UC AU,UC

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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");