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 = "A", header_format = "v4" and strength = "No Support" sorted by position_1

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Suggested facets: helix_number, reference_base_pair, GC, 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
1383 1383 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support A 99.5                         0.5       203 GC  
4701 4701 23S 25.1 566 575   v4 U:A cWW       No Support A     100.0                             37 UA  
2188 2188 16S 28 924 1392   v4 C:G cWW       No Support A   100.0                               169 CG  
2300 2300 16S 30 944 1237   v4 G:C No BP       No Support A 99.5             0.5                   191 GC  
2405 2405 16S 31 963 972   v4 G:C cWW       No Support A 100.0                                 201 GC  
2671 2671 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support A 36.0     7.6 55.8                       0.5 197 GC,AU,GU  
6311 6311 23S 49.1 1310 1604   v4 G:C cWW       No Support A 100.0                                 41 GC  
7858 7858 23S 74 2064 2446   v4 C:G cWW       No Support A   100.0                               41 CG  
7921 7921 23S 74 2074 2435   v4 U:A cWW       No Support A     100.0                             41 UA  
8831 8831 23S 90 2508 2580   v4 G:U cWW       No Support A         100.0                         41 GU  
8852 8852 23S 90 2511 2577   v4 U:A No BP       No Support A     100.0                             41 UA  
9013 9013 23S 93 2591 2603   v4 C:G cWW       No Support A   100.0                               41 CG  
9552 9552 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support A 100.0                                 38 GC  

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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");