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).

28 rows where conformation = "No BP" and tertiary_type = "3°: base pair" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, reference_base_pair, GC, UA, AU, GU, UG, AC, AG, CA, CU, GG, UU, Seq, predominant_types, covarying_types

group_code 7

strength 2

molecule 2

tertiary_type 1

  • 3°: base pair · 28 ✖

header_format 1

conformation 1

  • No BP · 28 ✖
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
1464 1464 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong T 0.1 7.6 7.8 0.1   52.0 0.9 0.2 0.1 0.5 10.5 0.5   0.1 15.3 0.3 3.9 6988 CG,UA,UG,CC,UC UG,AA,CC
1465 1465 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong 3 0.1 8.9 2.3     57.7   0.1   0.1 12.3 0.6     17.5 0.3   5946 CG,UA,UG,CC,UC UG,CC
1466 1466 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong B 0.1 11.2 2.6     68.4   0.1   0.2 15.6 0.8     0.6 0.3   4697 CG,UA,UG,CC UG,CC
1467 1467 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong A     1.8     94.9                 3.2     217 UG,UC  
1468 1468 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong C   0.6 3.0 1.2   73.8   0.6 0.6   1.8     1.2 15.9 1.2   164 UA,UG,UC AU,UG,CC
1469 1469 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong E 0.3   0.9     1.2   0.2             97.4   0.1 1032 UC  
1470 1470 16S 20 582 758   v4 C:C No BP   3°: base pair   Strong M 0.1 0.3 45.6 0.7 0.2 9.1 7.2 1.1 0.7 3.2 0.1     0.1 0.5 0.1 31.0 886 UA,UG,AA,CA CG,UA,GU,AC
6910 6910 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong T 1.9 18.8 3.7 1.6 7.7 0.3 1.0   0.2 2.8 0.2 0.1 20.0 0.2 0.1 0.3 40.8 861 CG,UA,GU,CA,GA CG,AU,GA,UC
6911 6911 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong 3 2.9 32.6 4.7 0.4 13.4   0.8   0.2       33.8 0.2   0.4 10.4 485 GC,CG,UA,GU,GA CG,AU,GA
6912 6912 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong B 3.4 13.6 5.7 0.4 2.7   1.5           62.1     0.8 9.9 264 GC,CG,UA,GU,GA CG,GA,UU
6913 6913 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong A         73.2                       26.8 41 GU  
6914 6914 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong C 2.0 4.0 9.0 11.0 1.0 3.0 5.0   1.0 24.0 2.0 1.0 8.0 1.0 1.0 1.0 26.0 100 GC,CG,UA,AU,UG,AA,CA,CC,GA GC,AU,UG,CA
6915 6915 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong E 2.8 67.8 4.4 0.6 15.6       0.6         0.6     7.8 180 GC,CG,UA,GU CG,UA,GU
6916 6916 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong M       0.4                         99.7 276    
9416 9416 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? T 0.7 1.7 39.9 7.6 9.7 4.3 1.7 0.2 1.4 3.3     2.4 0.5   1.0 25.5 421 UA,AU,GU,UG,CA,GA CG,UA,GU,AC
9417 9417 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? 3 0.9 2.2 39.7 7.4 12.6 4.9 0.3   1.2 4.3     3.1     0.6 22.7 325 CG,UA,AU,GU,UG,CA,GA CG,UA,GU
9418 9418 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? B     63.1 10.8 19.7 3.9             0.5       2.0 203 UA,AU,GU,UG UA,GU
9419 9419 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? A 7.9 2.6 2.6       2.6     36.8     13.2       34.3 38 GC,CG,UA,AA,CA,GA GC,CA
9420 9420 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? C     71.2 13.5   3.8               3.8   1.9 5.7 52 UA,AU,UG,GG UA,AU,GG
9421 9421 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? E   7.1   2.4 1.2 9.5     4.8       4.8     2.4 67.9 84 CG,AU,UG,AG,GA,UU AU,UG,GA
9422 9422 23S 99 2808 2891   v4 G:U No BP   3°: base pair   ??? M     4.5 2.3     13.6 2.3 4.5             2.3 70.4 44 UA,AU,AA,AC,AG,UU AA,UU
9563 9563 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong T     0.7   1.8 3.8   0.4 0.2 0.2   0.9 0.4 26.2 1.1 57.5 6.7 447 UG,GG,UU AC,CA,GG,UU
9564 9564 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong 3     0.3   2.0 2.6     0.3 0.3   0.9 0.6 30.4 0.3 59.4 3.2 352 GU,UG,GG,UU CA,GG,UU
9565 9565 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong B         3.4 1.5     0.5     1.0 1.0 51.7   41.0   205 GU,GG,UU GG,UU
9566 9566 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong A     2.6     10.5                   78.9 7.9 38 UA,UG,UU  
9567 9567 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong C         2.0 10.0               20.0   68.0   50 GU,UG,GG,UU GG,UU
9568 9568 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong E           1.8       0.9   0.9   0.9 0.9 87.2 7.4 109 UU CA,GG,UU
9569 9569 23S 101 2849 2866   v4 U:U No BP   3°: base pair   Strong M     4.4     6.7   4.4       2.2     8.9 31.1 42.2 45 UA,UG,AC,CU,UC,UU AC,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");