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 = "No BP", molecule = "23S" and strength = "Significant" sorted by position_1

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Suggested facets: UA, predominant_types

group_code 7

strength 1

  • Significant · 7 ✖

molecule 1

header_format 1

conformation 1

  • No BP · 7 ✖

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
4999 4999 23S 33 688 774   v4 U:G No BP       Significant T     90.9 1.5 0.1 3.6       0.1         3.3 0.3 0.2 886 UA,UG,UC UA,AU
5000 5000 23S 33 688 774   v4 U:G No BP       Significant 3     89.5     5.3                 5.0 0.2   524 UA,UG,UC  
5001 5001 23S 33 688 774   v4 U:G No BP       Significant B     88.7     9.2                 2.1     282 UA,UG,UC  
5002 5002 23S 33 688 774   v4 U:G No BP       Significant A     100.0                             37 UA  
5003 5003 23S 33 688 774   v4 U:G No BP       Significant C     100.0                             100 UA  
5004 5004 23S 33 688 774   v4 U:G No BP       Significant E     88.8     1.0                 9.8 0.5   205 UA,UC  
5005 5005 23S 33 688 774   v4 U:G No BP       Significant M     90.1 5.0 0.4 1.5       0.4         1.1 0.8 0.8 262 UA,AU 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");