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 molecule = "5S" and strength = "Significant" sorted by position_1

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Suggested facets: position_1, position_2, GC, UA, GG, Seq, predominant_types, covarying_types

group_code 4

header_format 2

tertiary_type 1

strength 1

  • Significant · 8 ✖

molecule 1

conformation 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
133 133 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant 3     0.3 0.5     5.2 0.3 92.3 0.7     0.2 0.3     0.2 611 AA,AG AG,CA
134 134 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant B     0.3 1.3     10.6 0.7 85.8       0.3 0.7     0.3 302 AA,AG AG,GA
135 135 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant A     2.3       2.3   86.4 9.1               44 UA,AA,AG,CA AG,CA
136 136 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant E                 100.0                 298 AG  
141 141 5S 3 80 96   v4 U:G cWW       Significant 3 0.3 8.5 0.2   0.2 89.2           0.2   0.2 0.2 1.1   611 CG,UG GC,UG,CU
142 142 5S 3 80 96   v4 U:G cWW       Significant B 0.3 3.6 0.3     94.7               0.7   0.3   302 CG,UG GC,UG
143 143 5S 3 80 96   v4 U:G cWW       Significant A           100.0                       44 UG  
144 144 5S 3 80 96   v4 U:G cWW       Significant E 0.7 14.8     0.3 80.9           0.3     0.3 2.7   298 CG,UG,UU GC,UG,CU

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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");