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).

13 rows where group_code = "B", header_format = "v4" and strength = "No Support" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, UA, gap, Seq, predominant_types

tertiary_type 2

molecule 2

conformation 2

strength 1

  • No Support · 13 ✖

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
1382 1382 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support B 99.4       0.1     0.1           0.1     0.2 4373 GC  
4700 4700 23S 25.1 566 575   v4 U:A cWW       No Support B     100.0                             281 UA  
2187 2187 16S 28 924 1392   v4 C:G cWW       No Support B   99.6       0.1           0.1         0.1 3785 CG  
2299 2299 16S 30 944 1237   v4 G:C No BP       No Support B 99.7                               0.1 4162 GC  
2404 2404 16S 31 963 972   v4 G:C cWW       No Support B 99.5             0.1                 0.2 4342 GC  
2670 2670 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support B 99.4       0.4                 0.1       4267 GC  
6310 6310 23S 49.1 1310 1604   v4 G:C cWW       No Support B 100.0                                 262 GC  
7857 7857 23S 74 2064 2446   v4 C:G cWW       No Support B   98.7       0.8                     0.4 239 CG  
7920 7920 23S 74 2074 2435   v4 U:A cWW       No Support B     98.3                           1.7 241 UA  
8830 8830 23S 90 2508 2580   v4 G:U cWW       No Support B         100.0                         242 GU  
8851 8851 23S 90 2511 2577   v4 U:A No BP       No Support B     100.0                             241 UA  
9012 9012 23S 93 2591 2603   v4 C:G cWW       No Support B   100.0                               237 CG  
9551 9551 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support B 6.3 3.9   3.4 29.3       10.7     0.5       45.9   205 GC,CG,AU,GU,AG,UU GC,AG,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");