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).

35 rows where header_format = "v4", molecule = "16S" and strength = "No Support" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, reference_base_pair, GC, CG, GU, UG, AC, CC, GG, gap, predominant_types, covarying_types

group_code 7

tertiary_type 2

conformation 2

strength 1

  • No Support · 35 ✖

molecule 1

  • 16S · 35 ✖

header_format 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  
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  
2186 2186 16S 28 924 1392   v4 C:G cWW       No Support 3   99.6       0.1           0.1         0.1 4928 CG  
2187 2187 16S 28 924 1392   v4 C:G cWW       No Support B   99.6       0.1           0.1         0.1 3785 CG  
2188 2188 16S 28 924 1392   v4 C:G cWW       No Support A   100.0                               169 CG  
2189 2189 16S 28 924 1392   v4 C:G cWW       No Support C   99.4                 0.6             154 CG  
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  
2191 2191 16S 28 924 1392   v4 C:G cWW       No Support M 0.2 98.3     0.1 0.2       0.1       1.0       899 CG GC,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  
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  
2402 2402 16S 31 963 972   v4 G:C cWW       No Support T 99.4             0.1                 0.4 6866 GC  
2403 2403 16S 31 963 972   v4 G:C cWW       No Support 3 99.5             0.1     0.1           0.3 5549 GC  
2404 2404 16S 31 963 972   v4 G:C cWW       No Support B 99.5             0.1                 0.2 4342 GC  
2405 2405 16S 31 963 972   v4 G:C cWW       No Support A 100.0                                 201 GC  
2406 2406 16S 31 963 972   v4 G:C cWW       No Support C 100.0                                 163 GC  
2407 2407 16S 31 963 972   v4 G:C cWW       No Support E 99.5             0.2     0.1           0.2 1006 GC  
2408 2408 16S 31 963 972   v4 G:C cWW       No Support M 99.9       0.1                         1153 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
2669 2669 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support 3 97.0     0.3 2.3           0.1     0.1     0.1 5466 GC,GU GC,AU
2670 2670 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support B 99.4       0.4                 0.1       4267 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  
2672 2672 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support C 100.0                                 162 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  
2674 2674 16S 34 1061 1195   v4 G:C cWW   3°: base pair   No Support M 63.7     35.5 0.3     0.2           0.1 0.1   0.2 1151 GC,AU GC,AU

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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");