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 = 3, molecule = "23S" and strength = "No Support" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, gap, 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
4699 4699 23S 25.1 566 575   v4 U:A cWW       No Support 3     99.8     0.2                       525 UA  
6309 6309 23S 49.1 1310 1604   v4 G:C cWW       No Support 3 99.6             0.2                 0.2 464 GC  
7856 7856 23S 74 2064 2446   v4 C:G cWW       No Support 3   99.3       0.5                     0.2 423 CG  
7919 7919 23S 74 2074 2435   v4 U:A cWW       No Support 3     99.1                           0.9 437 UA  
8829 8829 23S 90 2508 2580   v4 G:U cWW       No Support 3         100.0                         418 GU  
8850 8850 23S 90 2511 2577   v4 U:A No BP       No Support 3     100.0                             417 UA  
9011 9011 23S 93 2591 2603   v4 C:G cWW       No Support 3   99.5                             0.4 417 CG  
9550 9550 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support 3 21.5 3.3   16.0 19.0 3.0     6.6 0.3   0.6   0.3   29.0 0.3 331 GC,CG,AU,GU,UG,AG,UU GC,AG,CA,UU

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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");