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 = "tHS/tSH", molecule = "23S" and strength = "Strong" sorted by position_1

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Suggested facets: CG, gap, predominant_types, covarying_types

group_code 7

tertiary_type 1

strength 1

  • Strong · 7 ✖

molecule 1

header_format 1

conformation 1

  • tHS/tSH · 7 ✖
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
7568 7568 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong T 0.2 0.3 0.9 1.3 0.2   3.2   19.9 0.5     20.3       53.1 868 AA,AG,GA AG,GA
7569 7569 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong 3   0.4         0.7   20.4       35.3       43.2 456 AG,GA AG,GA
7570 7570 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong B   0.8         1.2   35.8       61.9       0.4 260 AG,GA AG,GA
7571 7571 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong A                                 100.0 41    
7572 7572 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong C       3.0     21.8   75.2                 101 AU,AA,AG  
7573 7573 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong E                                 100.0 155    
7574 7574 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong M 0.6 0.3 2.6 2.6 0.6   1.0   1.3 1.3     4.8       84.9 311 UA,AU,GA CG,AU,GA

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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");