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).

7 rows where strength = "No Support" and tertiary_type = "3°: pseudoknot" sorted by position_1

✎ View and edit SQL

This data as json, CSV (advanced)

Suggested facets: GC, GG, gap

group_code 7

tertiary_type 1

  • 3°: pseudoknot · 7 ✖

strength 1

  • No Support · 7 ✖

molecule 1

header_format 1

conformation 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
1380 1380 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support T 99.5       0.1     0.1           0.1     0.2 6570 GC  
1381 1381 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support 3 99.5       0.1     0.1           0.1     0.1 5577 GC  
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  
1383 1383 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support A 99.5                         0.5       203 GC  
1384 1384 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support C 99.4                   0.6             170 GC  
1385 1385 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support E 99.8             0.1                 0.1 1001 GC  
1386 1386 16S 18 521 528   v4 G:C cWW   3°: pseudoknot   No Support M 99.6       0.1                 0.1     0.1 831 GC  

Advanced export

JSON shape: default, array, newline-delimited

CSV options: 

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");