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 = "tHS", group_code = "C" and molecule = "23S" sorted by position_1

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Suggested facets: reference_base_pair, gap, Seq, predominant_types

strength 3

tertiary_type 1

molecule 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
3757 3757 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant C             6.2   93.8                 81 AA,AG  
6921 6921 23S 59 1528 1543   v4 A:G tHS   3°: base pair   Strong C   3.0 4.0 3.0   4.0 5.0   9.0 2.0   1.0       13.0 56.0 100 CG,UA,AU,UG,AA,AG,CA,UU AG,CA,UU
7145 7145 23S 62 1690 1697   v4 A:G tHS   3°: base pair   Strong C       1.0     46.5   50.5 1.0             1.0 101 AA,AG AG,CA
7320 7320 23S 65 1775 1789   v4 U:A tHS       Weak C     100.0                             101 UA  
7411 7411 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak C       4.0     53.5 11.9 29.7               1.0 101 AU,AA,AC,AG  

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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");