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

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Suggested facets: GU, AA, predominant_types, covarying_types

group_code 7

strength 1

  • Strong · 7 ✖

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
4173 4173 23S 14 265 427   v4 A:U tSS       Strong T 0.2   0.5 72.2 1.0   0.8         0.1     0.1 0.3 24.7 869 AU GC,UA,AU
4174 4174 23S 14 265 427   v4 A:U tSS       Strong 3       96.9 1.0   1.0         0.2     0.2 0.6 0.2 515 AU AU,UC
4175 4175 23S 14 265 427   v4 A:U tSS       Strong B       97.5 0.7   1.8                     277 AU  
4176 4176 23S 14 265 427   v4 A:U tSS       Strong A       100.0                           36 AU  
4177 4177 23S 14 265 427   v4 A:U tSS       Strong C       97.0 2.0   1.0                     100 AU,GU  
4178 4178 23S 14 265 427   v4 A:U tSS       Strong E       95.5 1.5             0.5     0.5 1.5 0.5 202 AU AU,UC
4179 4179 23S 14 265 427   v4 A:U tSS       Strong M 0.8   1.6 12.2 0.8   0.4                   84.3 254 AU GC,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");