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).

84 rows where conformation = "No BP" and strength = "Strong" sorted by position_1

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Suggested facets: helix_number, position_1, position_2, reference_base_pair, GU, UG, AA, AC, AG, CA, CC, CU, GA, GG, UC, UU

group_code 7

  • 3 12
  • A 12
  • B 12
  • C 12
  • E 12
  • M 12
  • T 12

tertiary_type 2

molecule 2

strength 1

  • Strong · 84 ✖

header_format 1

conformation 1

  • No BP · 84 ✖
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
2689 2689 16S 34 1064 1192   v4 G:C No BP       Strong T 73.2   2.5 0.4 1.8 0.2 0.2 0.1 0.1 0.7 0.1 12.9 2.5 0.5 4.2 0.4 0.1 6914 GC,UA,CU,GA,UC GC,UA,AG,CU
2690 2690 16S 34 1064 1192   v4 G:C No BP       Strong 3 79.8   0.4   1.8 0.2   0.1 0.1     15.9 0.1 0.4 0.8 0.2 0.1 5606 GC,CU GC,UA,AG,CU
2691 2691 16S 34 1064 1192   v4 G:C No BP       Strong B 97.1       2.1     0.1         0.1 0.6       4404 GC,GU  
2692 2692 16S 34 1064 1192   v4 G:C No BP       Strong A 100.0                                 198 GC  
2693 2693 16S 34 1064 1192   v4 G:C No BP       Strong C 89.6       6.1   0.6             3.7       163 GC,GU,GG GC,AA
2694 2694 16S 34 1064 1192   v4 G:C No BP       Strong E   0.1 2.2   1.0 1.3     0.3 0.1 0.1 89.3     4.3 1.1 0.2 1000 UA,CU,UC AG,CU,UC
2695 2695 16S 34 1064 1192   v4 G:C No BP       Strong M 38.0 0.1 12.9 3.0 1.0   1.0 0.2 0.3 3.9 0.7   15.0 0.3 21.7 1.6 0.5 1150 GC,UA,AU,CA,GA,UC GC,CG,UA,AU
6602 6602 23S 55 1420 1578   v4 A:U No BP       Strong T 4.5 10.9 5.9 7.0 0.8 0.2 0.1 0.2 0.6 0.2   0.8       22.3 46.3 860 GC,CG,UA,AU,UU GC,CG,AA,UU
6603 6603 23S 55 1420 1578   v4 A:U No BP       Strong 3 8.1 18.8 9.1 10.5 1.0 0.4   0.2 0.8 0.4   1.2       39.5 9.8 484 GC,CG,UA,AU,UU GC,CG,UU
6604 6604 23S 55 1420 1578   v4 A:U No BP       Strong B       11.4 0.4 0.8     1.5     2.3       72.3 11.5 264 AU,CU,UU AG,UU
6605 6605 23S 55 1420 1578   v4 A:U No BP       Strong A 39.0     29.3 7.3                       24.4 41 GC,AU,GU GC,AU
6606 6606 23S 55 1420 1578   v4 A:U No BP       Strong C     3.0 3.0 2.0   1.0 1.0       1.0       1.0 88.0 100 UA,AU,GU UA,AU
6607 6607 23S 55 1420 1578   v4 A:U No BP       Strong E 12.8 50.8 24.6 5.0 0.6     0.6   1.1             4.6 179 GC,CG,UA,AU GC,CG,UA,AU
6608 6608 23S 55 1420 1578   v4 A:U No BP       Strong M   1.1 1.4 2.2         0.4               94.9 276 AU CG,UA,AU
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    
7680 7680 23S 71 1935 1962   v4 G:C No BP       Strong T 51.6 20.5   16.5 5.7 0.2 0.2 2.6 1.1       0.2 0.7 0.2 0.4   847 GC,CG,AU,GU,AC GC,CG,AU
7681 7681 23S 71 1935 1962   v4 G:C No BP       Strong 3 56.9 39.9     2.5 0.5   0.2                   436 GC,CG,GU GC,CG
7682 7682 23S 71 1935 1962   v4 G:C No BP       Strong B 99.6         0.4                       240 GC GC,UG
7683 7683 23S 71 1935 1962   v4 G:C No BP       Strong A 22.0 51.2     26.8                         41 GC,CG,GU CG,GU
7684 7684 23S 71 1935 1962   v4 G:C No BP       Strong C 97.0             2.0           1.0       101 GC,AC  
7685 7685 23S 71 1935 1962   v4 G:C No BP       Strong E   98.7       0.6   0.6                   155 CG CG,AC
7686 7686 23S 71 1935 1962   v4 G:C No BP       Strong M 29.4     45.2 11.9   0.6 6.1 2.9       0.6 1.6 0.6 1.0   310 GC,AU,GU,AC,AG GC,AU
8135 8135 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong T 0.1 0.2 0.9 1.1 0.5   1.3   11.0 0.1     53.0   0.1   31.6 847 AG,GA AG,GA,UC
8136 8136 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong 3 0.2     2.1 0.9       20.1       76.7         437 AU,AG,GA AG,GA
8137 8137 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong B                 34.4       65.6         241 AG,GA AG,GA
8138 8138 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong A       4.9         12.2       82.9         41 AU,AG,GA AG,GA
8139 8139 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong C             3.0           97.0         101 AA,GA  
8140 8140 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong E 0.6     4.5 2.6               92.3         155 AU,GU,GA AU,GA
8141 8141 23S 76.1 2112 2169   v4 G:A No BP   3°: pseudoknot   Strong M   0.6 2.6       2.6   1.6 0.3     5.2   0.3   86.7 309 UA,AA,GA AG,GA,UC
8142 8142 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong T   26.0 37.7     1.1 0.1     1.8     1.3     0.1 32.0 847 CG,UA CG,UA
8143 8143 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong 3   27.5 66.8     0.9       2.5     2.1     0.2   437 CG,UA,CA,GA CG,UA
8144 8144 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong B   41.9 53.9             1.7     2.5         241 CG,UA,GA CG,UA
8145 8145 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong A   29.3 48.8             17.1     4.9         41 CG,UA,CA,GA CG,UA
8146 8146 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong C   96.0 3.0             1.0               101 CG,UA CG,UA
8147 8147 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong E   4.5 91.6     2.6             0.6     0.6   155 CG,UA,UG CG,UA
8148 8148 23S 76.1 2113 2170   v4 U:A No BP   3°: pseudoknot   Strong M   1.0 7.8     1.6 0.3     1.0     0.6       87.7 309 UA CG,UA
8149 8149 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong T 5.4 7.7 0.6 49.2 0.4   0.7   0.5 0.4   0.2 0.8     2.5 31.6 847 GC,CG,AU,UU GC,CG,UA,AU
8150 8150 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong 3 8.9     88.8 0.2         0.7   0.5 0.9         437 GC,AU GC,AU,CA
8151 8151 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong B       100.0                           241 AU  
8152 8152 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong A 85.4     14.6                           41 GC,AU GC,AU
8153 8153 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong C 2.0 64.4   11.9 1.0                     20.8   101 GC,CG,AU,UU GC,CG,UU
8154 8154 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong E 2.6     91.0 0.6         1.9   1.3 2.6         155 GC,AU,GA GC,AU,CA
8155 8155 23S 76.1 2117 2172   v4 A:U No BP   3°: pseudoknot   Strong M 1.6   1.6 5.5 0.3   1.9   1.3       1.0       86.7 309 AU GC,UA,AU
8478 8478 23S 84 2296 2322   v4 U:A No BP       Strong T   0.4 63.4 0.1   0.2 0.1 0.1   0.1 0.1   0.5   2.7 0.5 31.7 848 UA,UC CG,UA,AU
8479 8479 23S 84 2296 2322   v4 U:A No BP       Strong 3     92.9         0.2   0.2     0.9   5.0 0.7   437 UA,UC UA,AC
8480 8480 23S 84 2296 2322   v4 U:A No BP       Strong B     96.7                       2.5 0.8   241 UA,UC  
8481 8481 23S 84 2296 2322   v4 U:A No BP       Strong A     100.0                             41 UA  
8482 8482 23S 84 2296 2322   v4 U:A No BP       Strong C     99.0                           1.0 102 UA  
8483 8483 23S 84 2296 2322   v4 U:A No BP       Strong E     85.2         0.6   0.6     2.6   10.3 0.6   155 UA,GA,UC UA,AC
8484 8484 23S 84 2296 2322   v4 U:A No BP       Strong M   1.0 10.0 0.3   0.6 0.3       0.3       0.3 0.3 86.7 309 UA CG,UA,AU
9094 9094 23S 94 2637 2781   v4 U:A No BP       Strong T 0.9 11.6 51.8 1.7   0.8 0.8 0.2 0.3 1.1 0.6 0.2 0.8   0.8 0.5 28.3 662 CG,UA GC,CG,UA,AU
9095 9095 23S 94 2637 2781   v4 U:A No BP       Strong 3 1.1 20.3 71.0 0.8   1.1 0.3 0.3   1.8 1.1 0.3 0.3   1.3 0.5   379 CG,UA GC,CG,UA,AU
9096 9096 23S 94 2637 2781   v4 U:A No BP       Strong B     99.5     0.5                       213 UA  
9097 9097 23S 94 2637 2781   v4 U:A No BP       Strong A     100.0                             41 UA  
9098 9098 23S 94 2637 2781   v4 U:A No BP       Strong C     100.0                             56 UA  
9099 9099 23S 94 2637 2781   v4 U:A No BP       Strong E 1.6 68.0 12.8 1.6   3.2 0.8 0.8   1.6 3.2   0.8   4.0 1.6   125 CG,UA,UG,CC,UC GC,CG,UA,AU
9100 9100 23S 94 2637 2781   v4 U:A No BP       Strong M 0.9   7.9 3.5   0.4 1.8   0.9       1.8     0.4 82.3 227 UA,AU GC,UA,AU
9409 9409 23S 98 2796 2800   v4 U:A No BP       Strong T 1.7 0.6 4.2 0.6   0.4       0.9           0.1 91.4 693 UA GC,CG,UA,AU
9410 9410 23S 98 2796 2800   v4 U:A No BP       Strong 3 3.1 1.0 7.0 1.0   0.8       1.6           0.3 85.2 384 GC,UA GC,CG,UA,AU
9411 9411 23S 98 2796 2800   v4 U:A No BP       Strong B   1.4 12.4 0.9   0.5       2.8           0.5 81.7 218 UA,CA CG,UA,AU
9412 9412 23S 98 2796 2800   v4 U:A No BP       Strong A 30.0 2.5   5.0   5.0                     57.5 40 GC,CG,AU,UG GC,AU,UG
9413 9413 23S 98 2796 2800   v4 U:A No BP       Strong C     2.2                           97.8 90 UA  
9414 9414 23S 98 2796 2800   v4 U:A No BP       Strong E                                 100.0 126    
9415 9415 23S 98 2796 2800   v4 U:A No BP       Strong M                                 100.0 219    
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");