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).

14 rows where conformation = "tHS", header_format = "v4" and strength = "Weak" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, reference_base_pair, UA, AU, AA, AC, Seq, predominant_types, covarying_types

group_code 7

tertiary_type 1

strength 1

  • Weak · 14 ✖

molecule 1

header_format 1

conformation 1

  • tHS · 14 ✖
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
7316 7316 23S 65 1775 1789   v4 U:A tHS       Weak T   1.0 97.3 0.4     0.1               0.5 0.8   842 UA CG,UA,AU
7317 7317 23S 65 1775 1789   v4 U:A tHS       Weak 3     98.9       0.2               0.9     458 UA  
7318 7318 23S 65 1775 1789   v4 U:A tHS       Weak B     99.6       0.4                     261 UA  
7319 7319 23S 65 1775 1789   v4 U:A tHS       Weak A     100.0                             41 UA  
7320 7320 23S 65 1775 1789   v4 U:A tHS       Weak C     100.0                             101 UA  
7321 7321 23S 65 1775 1789   v4 U:A tHS       Weak E     97.4                       2.6     156 UA,UC  
7322 7322 23S 65 1775 1789   v4 U:A tHS       Weak M   2.8 93.6 1.1                       2.5   283 CG,UA,UU CG,UA,AU
7407 7407 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak T 0.5 0.4 0.6 1.5 20.2 0.1 7.6 2.6 37.5 0.2 0.1 0.1       0.2 28.2 840 GU,AA,AC,AG UA,GU,AG,CC
7408 7408 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak 3 0.9 0.7 0.2 0.9 37.3   0.2 2.0 55.9   0.2         0.4 1.3 456 GU,AC,AG UA,GU,AG,CC
7409 7409 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak B       0.4     0.4 0.4 98.5               0.4 259 AG  
7410 7410 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak A         75.6     17.1     2.4         4.9   41 GU,AC,CC,UU GU,AC
7411 7411 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak C       4.0     53.5 11.9 29.7               1.0 101 AU,AA,AC,AG  
7412 7412 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak E 2.6 1.9 0.6 1.9 89.1     0.6                 3.2 156 GC,GU CG,UA,GU,AC
7413 7413 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak M     1.4 1.8   0.4 3.2 0.4 10.6 0.7   0.4         81.3 283 AA,AG UA,AG,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");