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 = "No BP" and strength = "No Support" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, reference_base_pair, UA, AC, gap, predominant_types

group_code 7

molecule 2

strength 1

  • No Support · 14 ✖

header_format 1

conformation 1

  • No BP · 14 ✖

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
2297 2297 16S 30 944 1237   v4 G:C No BP       No Support T 99.3       0.2     0.1                 0.3 6633 GC  
2298 2298 16S 30 944 1237   v4 G:C No BP       No Support 3 99.6             0.1                 0.2 5326 GC  
2299 2299 16S 30 944 1237   v4 G:C No BP       No Support B 99.7                               0.1 4162 GC  
2300 2300 16S 30 944 1237   v4 G:C No BP       No Support A 99.5             0.5                   191 GC  
2301 2301 16S 30 944 1237   v4 G:C No BP       No Support C 100.0                                 160 GC  
2302 2302 16S 30 944 1237   v4 G:C No BP       No Support E 99.2                       0.1     0.1 0.6 972 GC GC,UU
2303 2303 16S 30 944 1237   v4 G:C No BP       No Support M 98.4       1.1     0.2         0.1       0.3 1152 GC  
8849 8849 23S 90 2511 2577   v4 U:A No BP       No Support T     99.1             0.9               778 UA  
8850 8850 23S 90 2511 2577   v4 U:A No BP       No Support 3     100.0                             417 UA  
8851 8851 23S 90 2511 2577   v4 U:A No BP       No Support B     100.0                             241 UA  
8852 8852 23S 90 2511 2577   v4 U:A No BP       No Support A     100.0                             41 UA  
8853 8853 23S 90 2511 2577   v4 U:A No BP       No Support C     100.0                             98 UA  
8854 8854 23S 90 2511 2577   v4 U:A No BP       No Support E     100.0                             135 UA  
8855 8855 23S 90 2511 2577   v4 U:A No BP       No Support M     97.3             2.7               263 UA,CA  

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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");