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 = "cWH", molecule = "23S" and strength = "Strong" sorted by position_1

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Suggested facets: CA, covarying_types

group_code 7

tertiary_type 1

strength 1

  • Strong · 7 ✖

molecule 1

header_format 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
3837 3837 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong T 9.9 1.5 34.7 6.9 6.2 0.8 0.7 0.1 0.1 0.5 0.5 0.4 0.8 0.5 7.3 1.8 27.1 740 GC,UA,AU,GU,UC GC,CG,UA,AU
3838 3838 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong 3 2.2 2.2 60.3 8.5 6.3 1.5       0.7 1.0   0.2   13.1 2.7 1.1 411 GC,CG,UA,AU,GU,UC,UU GC,CG,UA,AU
3839 3839 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong B 2.7 2.7 71.9 10.5 6.6         0.4     0.4   0.4 3.9 0.4 256 GC,CG,UA,AU,GU,UU GC,CG,UA,AU
3840 3840 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong A 2.8   75.0 8.3 11.1                       2.8 36 GC,UA,AU,GU UA,GU
3841 3841 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong C 63.5 2.1 3.1 9.4 19.8   1.0           1.0         96 GC,CG,UA,AU,GU GC,CG,UA,AU
3842 3842 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong E 0.8 1.7 31.1 4.2 4.2 5.0       1.7 3.4       44.5 0.8 2.5 119 UA,AU,GU,UG,CC,UC CG,AU,UC
3843 3843 23S 6.2 67 74   v4 U:A cWH   3°: pseudoknot   Strong M 1.3   2.6 3.0 0.4   1.7 0.4 0.4 0.4   1.3 1.7 1.7   0.9 84.1 233 UA,AU UA,AU,GG

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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");