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 = "tSH", header_format = "v4" and strength = "Significant" sorted by position_1

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Suggested facets: GU, predominant_types

group_code 7

strength 1

  • Significant · 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
7099 7099 23S 61 1667 1993   v4 G:U tSH       Significant T 0.1   1.2 0.6 97.3   0.1           0.1 0.1   0.1 0.2 807 GU UA,GU
7100 7100 23S 61 1667 1993   v4 G:U tSH       Significant 3 0.2     0.2 99.3                     0.2   430 GU  
7101 7101 23S 61 1667 1993   v4 G:U tSH       Significant B 0.4       99.2                     0.4   236 GU  
7102 7102 23S 61 1667 1993   v4 G:U tSH       Significant A         100.0                         41 GU  
7103 7103 23S 61 1667 1993   v4 G:U tSH       Significant C         100.0                         101 GU  
7104 7104 23S 61 1667 1993   v4 G:U tSH       Significant E       0.7 99.3                         153 GU  
7105 7105 23S 61 1667 1993   v4 G:U tSH       Significant M     3.6 1.4 93.1   0.4           0.4 0.4     0.7 276 UA,GU UA,GU

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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");