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

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Suggested facets: helix_number, reference_base_pair, UA, CC, 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
1385 1385 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support E 99.8             0.1                 0.1 1001 GC  
4703 4703 23S 25.1 566 575   v4 U:A cWW       No Support E     99.5     0.5                       207 UA  
2190 2190 16S 28 924 1392   v4 C:G cWW       No Support E   99.5             0.1 0.1 0.1           0.2 973 CG  
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
2407 2407 16S 31 963 972   v4 G:C cWW       No Support E 99.5             0.2     0.1           0.2 1006 GC  
2673 2673 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support E 99.3       0.2           0.2     0.1     0.2 998 GC  
6313 6313 23S 49.1 1310 1604   v4 G:C cWW       No Support E 98.8             0.6                 0.6 161 GC  
7860 7860 23S 74 2064 2446   v4 C:G cWW       No Support E   100.0                               143 CG  
7923 7923 23S 74 2074 2435   v4 U:A cWW       No Support E     100.0                             155 UA  
8833 8833 23S 90 2508 2580   v4 G:U cWW       No Support E         100.0                         135 GU  
8854 8854 23S 90 2511 2577   v4 U:A No BP       No Support E     100.0                             135 UA  
9015 9015 23S 93 2591 2603   v4 C:G cWW       No Support E   98.6                             1.4 139 CG  
9554 9554 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support E 22.7 3.4   52.3 3.4 11.4       1.1   1.1   1.1   2.3 1.1 88 GC,CG,AU,GU,UG,UU GC,AU,UG,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");