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

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Suggested facets: helix_number, reference_base_pair, UG, AC, GG, 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
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  
4698 4698 23S 25.1 566 575   v4 U:A cWW       No Support T     98.6     0.1                     1.2 887 UA  
2185 2185 16S 28 924 1392   v4 C:G cWW       No Support T   99.3       0.1       0.1 0.1 0.1   0.2     0.1 5980 CG  
2297 2297 16S 30 944 1237   v4 G:C No BP       No Support T 99.3       0.2     0.1                 0.3 6633 GC  
2402 2402 16S 31 963 972   v4 G:C cWW       No Support T 99.4             0.1                 0.4 6866 GC  
2668 2668 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support T 91.4     6.3 1.9                 0.1     0.2 6774 GC,AU GC,AU
6308 6308 23S 49.1 1310 1604   v4 G:C cWW       No Support T 72.3           0.1 0.1         0.2       27.1 839 GC GC,AA
7855 7855 23S 74 2064 2446   v4 C:G cWW       No Support T   99.0 0.6     0.2                     0.1 831 CG CG,UA
7918 7918 23S 74 2074 2435   v4 U:A cWW       No Support T     99.4       0.1                   0.5 845 UA  
8828 8828 23S 90 2508 2580   v4 G:U cWW       No Support T         98.8                     1.2   778 GU  
8849 8849 23S 90 2511 2577   v4 U:A No BP       No Support T     99.1             0.9               778 UA  
9010 9010 23S 93 2591 2603   v4 C:G cWW       No Support T   99.5       0.1               0.1     0.2 734 CG  
9549 9549 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support T 20.7 2.6 2.6 20.2 17.8 2.8   0.2 5.2 0.5   0.9   1.2   23.2 2.1 426 GC,CG,UA,AU,GU,UG,AG,UU GC,AG,CA,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");