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).

8 rows where group_code = "M", molecule = "23S" and strength = "No Support" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, Seq, predominant_types

conformation 2

tertiary_type 1

strength 1

  • No Support · 8 ✖

molecule 1

header_format 1

group_code 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
4704 4704 23S 25.1 566 575   v4 U:A cWW       No Support M     95.8                           4.2 262 UA  
6314 6314 23S 49.1 1310 1604   v4 G:C cWW       No Support M 16.4           0.4           0.7       82.6 275 GC GC,AA
7861 7861 23S 74 2064 2446   v4 C:G cWW       No Support M   98.4 1.6                             309 CG CG,UA
7924 7924 23S 74 2074 2435   v4 U:A cWW       No Support M     99.7       0.3                     309 UA  
8834 8834 23S 90 2508 2580   v4 G:U cWW       No Support M         96.6                     3.4   263 GU,UU  
8855 8855 23S 90 2511 2577   v4 U:A No BP       No Support M     97.3             2.7               263 UA,CA  
9016 9016 23S 93 2591 2603   v4 C:G cWW       No Support M   99.2       0.4               0.4       262 CG  
9555 9555 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support M 4.4   20.0 26.7 11.1 2.2       2.2       8.9   6.7 17.8 45 GC,UA,AU,GU,UG,CA,GG,UU 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");