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).

9,588 rows where header_format = "v4" sorted by position_1

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Suggested facets: reference_base_pair

conformation 12

group_code 7

  • 3 1,386
  • A 1,386
  • B 1,386
  • E 1,386
  • C 1,348
  • M 1,348
  • T 1,348

strength 5

tertiary_type 3

molecule 3

header_format 1

  • v4 · 9,588 ✖
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
1 1 5S 1 1 119   v4 U:A cWW       Strong 3 5.2 0.7 8.7 2.6 0.5 1.3 0.3 0.5 0.3 0.2 0.2 0.2 0.2   0.3 2.3 76.6 611 GC,UA,AU,UU GC,CG,UA,AU
2 2 5S 1 1 119   v4 U:A cWW       Strong B 18.8   35.4 9.7 0.7 5.6 1.4 2.1 1.4 1.4 0.7 0.7     1.4 11.8 9.0 144 GC,UA,AU,UG,AC,UU GC,UA,AU
3 3 5S 1 1 119   v4 U:A cWW       Strong A 11.4 6.8 13.6 4.5 4.5               2.3     2.3 54.5 44 GC,CG,UA,AU,GU,GA,UU GC,CG,UA,AU
4 4 5S 1 1 119   v4 U:A cWW       Strong E                                 100.0 1    
3515 3515 23S 1 1 2902   v4 G:C cWW       Strong T 40.7 0.9 4.9 10.4 4.3 0.6 1.8 0.3   0.6   0.6     0.3 0.6 33.9 327 GC,UA,AU,GU GC,CG,UA,AU
3516 3516 23S 1 1 2902   v4 G:C cWW       Strong 3 50.8 1.2 2.4 7.7 3.7   1.6     0.8   0.8       0.4 30.4 246 GC,UA,AU,GU GC,CG,UA,AU
3517 3517 23S 1 1 2902   v4 G:C cWW       Strong B 69.9 1.2 3.5 10.4 4.0   2.3         0.6       0.6 7.5 173 GC,UA,AU,GU,AA GC,CG,UA,AU
3518 3518 23S 1 1 2902   v4 G:C cWW       Strong A 12.1 3.0   3.0 6.1         6.1   3.0         66.7 33 GC,CG,AU,GU,CA,CU GC,AU,CA
3519 3519 23S 1 1 2902   v4 G:C cWW       Strong C 12.8   2.1 12.8 6.4   2.1                   63.8 47 GC,UA,AU,GU,AA GC,UA,AU
3520 3520 23S 1 1 2902   v4 G:C cWW       Strong E                                 100.0 40    
3521 3521 23S 1 1 2902   v4 G:C cWW       Strong M 5.9   26.5 26.5 5.9 5.9 2.9 2.9             2.9 2.9 17.6 34 GC,UA,AU,GU,UG,AA,AC,UC,UU GC,UA,AU
5 5 5S 1 2 118   v4 G:C cWW       Strong 3 20.0 1.8 3.8 3.8 0.5 1.3 0.5 1.8 0.2   0.2 0.2 0.3   0.7 0.7 64.4 610 GC,UA,AU GC,CG,UA,AU
6 6 5S 1 2 118   v4 G:C cWW       Strong B 54.8 2.7 10.5 10.0 1.4 4.1 1.4 5.5     0.5 0.5 0.9   1.8 1.8 4.1 219 GC,CG,UA,AU,UG,AC GC,CG,UA,AU
7 7 5S 1 2 118   v4 G:C cWW       Strong A 27.9 16.3   4.7 2.3       2.3               46.5 43 GC,CG,AU,GU,AG GC,CG,AU
8 8 5S 1 2 118   v4 G:C cWW       Strong E                                 100.0 1    
3522 3522 23S 1 2 2901   v4 G:C cWW       Strong T 36.5 2.8 7.7 17.2 2.5   0.6 0.3 0.3 0.3 0.3 0.6 0.9   1.2 1.5 27.2 326 GC,CG,UA,AU,GU GC,CG,UA,AU
3523 3523 23S 1 2 2901   v4 G:C cWW       Strong 3 45.9 3.3 3.7 16.3 2.0   0.8 0.4   0.4   0.8     0.8 0.4 25.1 246 GC,CG,UA,AU,GU GC,CG,UA,AU
3524 3524 23S 1 2 2901   v4 G:C cWW       Strong B 63.6 0.6 5.2 23.1 2.9   1.2 0.6       0.6     1.2   1.2 173 GC,UA,AU,GU GC,CG,UA,AU
3525 3525 23S 1 2 2901   v4 G:C cWW       Strong A 9.1 21.2               3.0   3.0       3.0 60.6 33 GC,CG,CA,CU,UU GC,CG,UU
3526 3526 23S 1 2 2901   v4 G:C cWW       Strong C 2.2   21.7 17.4 2.2               2.2   4.3 4.3 45.7 46 GC,UA,AU,GU,GA,UC,UU GC,UA,AU
3527 3527 23S 1 2 2901   v4 G:C cWW       Strong E                                 100.0 40    
3528 3528 23S 1 2 2901   v4 G:C cWW       Strong M 14.7 2.9 17.6 23.5 5.9       2.9   2.9   5.9     5.9 17.6 34 GC,CG,UA,AU,GU,AG,CC,GA,UU GC,CG,UA,AU
9 9 5S 1 3 117   v4 C:G cWW       Strong 3 27.2 23.4 9.0 23.3 0.7 9.6 0.3 0.7 0.2   0.2 0.2 0.2 0.2 0.7 0.7 3.7 602 GC,CG,UA,AU,UG GC,CG,UA,AU
10 10 5S 1 3 117   v4 C:G cWW       Strong B 2.1 50.9 18.6 1.1   20.7   0.4     0.4 0.7 0.4 0.7 1.4 1.4 1.4 285 GC,CG,UA,UG GC,CG,UA,AU
11 11 5S 1 3 117   v4 C:G cWW       Strong A 36.4 15.9 4.5 15.9                         27.3 44 GC,CG,UA,AU GC,CG,UA,AU
12 12 5S 1 3 117   v4 C:G cWW       Strong E 49.7 0.3 0.7 46.2 1.7   0.3 1.0                   292 GC,AU GC,CG,UA,AU
3529 3529 23S 1 3 2900   v4 U:A cWW       Strong T 4.0 5.8 45.2 8.0 0.6 7.1   0.3   0.9   3.1     0.6 3.1 21.1 325 GC,CG,UA,AU,UG,CU,UU GC,CG,UA,AU
3530 3530 23S 1 3 2900   v4 U:A cWW       Strong 3 5.3 7.3 49.0 2.8 0.8 1.2       1.2   3.6     0.4 3.6 24.6 247 GC,CG,UA,AU,CU,UU GC,CG,UA,AU
3531 3531 23S 1 3 2900   v4 U:A cWW       Strong B 6.9 4.6 69.9 4.0 1.2 1.7       1.7   5.2       2.9 1.8 173 GC,CG,UA,AU,CU,UU GC,UA,CU
3532 3532 23S 1 3 2900   v4 U:A cWW       Strong A 3.0 30.3                         3.0 12.1 51.5 33 GC,CG,UC,UU GC,CG,UU
3533 3533 23S 1 3 2900   v4 U:A cWW       Strong C     40.9 6.8   45.5                   2.3 4.5 44 UA,AU,UG,UU AU,UG
3534 3534 23S 1 3 2900   v4 U:A cWW       Strong E                                 100.0 41    
3535 3535 23S 1 3 2900   v4 U:A cWW       Strong M   2.9 23.5 47.1       2.9       2.9     2.9   17.6 34 CG,UA,AU,AC,CU,UC CG,UA,AU
13 13 5S 1 4 116   v4 C:G cWW       Strong 3 9.1 46.2 13.0 2.5 5.6 13.4   0.2 0.2 0.2 0.3 0.2 0.3 0.3 0.2 6.9 1.5 606 GC,CG,UA,AU,GU,UG,UU GC,CG,UA,AU
14 14 5S 1 4 116   v4 C:G cWW       Strong B 2.3 60.9 14.7 1.7 1.0 15.7       0.3 0.7 0.3 0.7   0.3 0.3 1.0 299 GC,CG,UA,UG GC,CG,UA,AU
15 15 5S 1 4 116   v4 C:G cWW       Strong A 9.1 20.5 20.5 11.4   20.5                   2.3 15.9 44 GC,CG,UA,AU,UG,UU GC,CG,UA,AU
16 16 5S 1 4 116   v4 C:G cWW       Strong E 15.1 35.4 10.0 1.7 10.7 9.6   0.3 0.3         1.7   14.4 0.7 291 GC,CG,UA,GU,UG,UU GC,CG,UU
3536 3536 23S 1 4 2899   v4 U:A cWW       Strong T 3.4 28.6 31.7 7.1 0.6 0.9 1.5   0.3 0.3   6.2 0.3   0.3 0.3 18.4 325 GC,CG,UA,AU,CU GC,CG,UA,AU
3537 3537 23S 1 4 2899   v4 U:A cWW       Strong 3 3.2 30.8 36.4 4.5   0.8 1.2   0.4 0.4         0.4   21.8 247 GC,CG,UA,AU GC,CG,UA,AU
3538 3538 23S 1 4 2899   v4 U:A cWW       Strong B 1.2 42.8 49.1 2.3   1.2 1.2   0.6 0.6             1.2 173 CG,UA,AU GC,CG,UA,AU
3539 3539 23S 1 4 2899   v4 U:A cWW       Strong A 18.2 6.1 15.2 21.2                     3.0   36.4 33 GC,CG,UA,AU,UC GC,CG,UA,AU
3540 3540 23S 1 4 2899   v4 U:A cWW       Strong C   36.4 6.8 9.1 2.3             45.5           44 CG,UA,AU,GU,CU UA,CU
3541 3541 23S 1 4 2899   v4 U:A cWW       Strong E             2.4                   97.5 41 AA  
3542 3542 23S 1 4 2899   v4 U:A cWW       Strong M 8.8 2.9 29.4 23.5 2.9 2.9 5.9           2.9     2.9 17.6 34 GC,CG,UA,AU,GU,UG,AA,GA,UU GC,CG,UA,AU
17 17 5S 1 5 115   v4 U:A cWW       Strong 3 8.6 31.1 41.8 11.0 0.3 3.8 0.2   1.2 0.7           0.2 1.3 608 GC,CG,UA,AU,UG GC,CG,UA,AU
18 18 5S 1 5 115   v4 U:A cWW       Strong B 3.3 18.4 70.6 0.3   3.0 0.3   2.3 0.3             1.3 299 GC,CG,UA,UG,AG GC,CG,UA,AU
19 19 5S 1 5 115   v4 U:A cWW       Strong A 2.3 13.6 38.6 31.8   6.8       2.3             4.5 44 GC,CG,UA,AU,UG,CA GC,CG,UA,AU
20 20 5S 1 5 115   v4 U:A cWW       Strong E 14.3 46.8 13.3 18.1 0.7 4.4 0.3     0.7       0.3   0.3 0.7 293 GC,CG,UA,AU,UG GC,CG,UA,AU
3543 3543 23S 1 5 2898   v4 A:U cWW       Strong T 6.1 2.5 2.1 69.9 0.6 0.6 0.3         0.3     0.3 0.6 16.5 326 GC,CG,UA,AU GC,CG,UA,AU
3544 3544 23S 1 5 2898   v4 A:U cWW       Strong 3 6.9 2.0 0.8 70.2 0.4   0.4         0.4         18.9 248 GC,CG,AU GC,CG,UA,AU
3545 3545 23S 1 5 2898   v4 A:U cWW       Strong B   0.6   98.9                         0.6 174 AU CG,AU
3546 3546 23S 1 5 2898   v4 A:U cWW       Strong A 51.5 12.1 6.1 6.1     3.0         3.0         18.2 33 GC,CG,UA,AU,AA,CU GC,CG,UA,AU
3547 3547 23S 1 5 2898   v4 A:U cWW       Strong C   2.3 2.3 95.5                           44 CG,UA,AU CG,UA,AU
3548 3548 23S 1 5 2898   v4 A:U cWW       Strong E         2.4                       97.5 41 GU  
3549 3549 23S 1 5 2898   v4 A:U cWW       Strong M 8.8 5.9 11.8 35.3 2.9 5.9                 2.9 5.9 20.5 34 GC,CG,UA,AU,GU,UG,UC,UU GC,CG,UA,AU
21 21 5S 1 6 114   v4 G:C cWW       Strong 3 47.8 7.1 33.2 9.4 1.0 0.7 0.2 0.3       0.2         0.3 609 GC,CG,UA,AU GC,CG,UA,AU
22 22 5S 1 6 114   v4 G:C cWW       Strong B 89.7 1.3 0.3 4.7 1.7 1.0         0.3 0.3         0.7 300 GC,AU GC,CG,UA,AU
23 23 5S 1 6 114   v4 G:C cWW       Strong A 65.9 15.9   15.9 2.3                         44 GC,CG,AU,GU GC,CG,AU
24 24 5S 1 6 114   v4 G:C cWW       Strong E 4.1 11.9 69.0 12.6   0.3 0.3 0.7             0.3 0.3 0.3 294 GC,CG,UA,AU GC,CG,UA,AU
3550 3550 23S 1 6 2897   v4 A:U cWW       Strong T 7.4 0.3 4.6 68.7 0.3   0.9           0.6 0.6   0.6 15.9 326 GC,UA,AU GC,CG,UA,AU
3551 3551 23S 1 6 2897   v4 A:U cWW       Strong 3 8.9 0.4 1.2 69.8 0.4   0.4             0.8     18.1 248 GC,AU GC,CG,UA,AU
3552 3552 23S 1 6 2897   v4 A:U cWW       Strong B 0.6     98.9 0.6                         174 AU GC,AU
3553 3553 23S 1 6 2897   v4 A:U cWW       Strong A 63.6 3.0 9.1 3.0                   6.1     15.2 33 GC,CG,UA,AU,GG GC,CG,UA,AU
3554 3554 23S 1 6 2897   v4 A:U cWW       Strong C     4.5 95.5                           44 UA,AU UA,AU
3555 3555 23S 1 6 2897   v4 A:U cWW       Strong E             2.4                   97.4 41 AA  
3556 3556 23S 1 6 2897   v4 A:U cWW       Strong M 5.9   29.4 26.5     5.9           5.9     5.9 20.5 34 GC,UA,AU,AA,GA,UU GC,UA,AU
25 25 5S 1 7 113   v4 G:C cWW       Strong 3 59.0 1.3 4.4 33.9 0.8 0.2   0.2         0.2         610 GC,UA,AU GC,CG,UA,AU
26 26 5S 1 7 113   v4 G:C cWW       Strong B 89.4   0.3 7.6 1.3     0.3             0.3   0.7 301 GC,AU GC,UA,AU
27 27 5S 1 7 113   v4 G:C cWW       Strong A 72.7 15.9   9.1 2.3                         44 GC,CG,AU,GU GC,CG,AU
28 28 5S 1 7 113   v4 G:C cWW       Strong E 25.9 0.3 8.8 63.9           0.3     0.3       0.3 294 GC,UA,AU GC,CG,UA,AU
3557 3557 23S 1 7 2896   v4 G:C cWW       Strong T 58.1 4.3 2.7 15.2 1.2   0.6 1.5   0.3 0.3   0.6       15.1 329 GC,CG,UA,AU GC,CG,UA,AU
3558 3558 23S 1 7 2896   v4 G:C cWW       Strong 3 72.5 4.8 0.8 2.8 0.8   0.4     0.4 0.4           17.2 251 GC,CG,AU GC,CG,UA,AU
3559 3559 23S 1 7 2896   v4 G:C cWW       Strong B 95.5   0.6 3.4             0.6             177 GC,AU GC,UA,AU
3560 3560 23S 1 7 2896   v4 G:C cWW       Strong A 39.4 36.4 3.0 3.0 6.1         3.0             9.1 33 GC,CG,UA,AU,GU,CA GC,CG,UA,AU
3561 3561 23S 1 7 2896   v4 G:C cWW       Strong C 15.9   4.5 68.2       11.4                   44 GC,UA,AU,AC GC,UA,AU
3562 3562 23S 1 7 2896   v4 G:C cWW       Strong E             2.4                   97.6 41 AA  
3563 3563 23S 1 7 2896   v4 G:C cWW       Strong M 5.9 5.9 14.7 38.2 5.9   2.9           5.9       20.5 34 GC,CG,UA,AU,GU,AA,GA GC,CG,UA,AU
29 29 5S 1 8 112   v4 C:G cWW       Strong 3 2.5 70.0 0.5 0.7 0.3 25.9         0.2             611 GC,CG,UG GC,CG,UA,AU
30 30 5S 1 8 112   v4 C:G cWW       Strong B 2.0 39.5 1.3 1.3   55.1               0.3     0.3 301 CG,UG GC,AU,UG
31 31 5S 1 8 112   v4 C:G cWW       Strong A   97.7       2.3                       44 CG,UG  
32 32 5S 1 8 112   v4 C:G cWW       Strong E 3.4 94.9     0.3 0.7         0.3     0.3       295 GC,CG GC,CG
3564 3564 23S 1 8 2895   v4 C:G cWW       Weak T 4.9 21.6 31.6 3.3 0.6 15.5 1.8 0.6   3.0 0.3     0.3   0.6 15.7 329 GC,CG,UA,AU,UG,CA GC,CG,UA,AU
3565 3565 23S 1 8 2895   v4 C:G cWW       Weak 3 5.6 27.1 27.5 1.2   19.9         0.4     0.4     18.0 251 GC,CG,UA,UG GC,CG,UA,AU
3566 3566 23S 1 8 2895   v4 C:G cWW       Weak B 3.4 33.3 33.9 1.1   27.7               0.6       177 GC,CG,UA,UG GC,CG,UA,AU
3567 3567 23S 1 8 2895   v4 C:G cWW       Weak A 24.2 24.2 27.3 3.0   3.0         3.0           15.1 33 GC,CG,UA,AU,UG,CC GC,CG,UA,AU
3568 3568 23S 1 8 2895   v4 C:G cWW       Weak C 2.3 6.8 56.8 2.3   2.3 9.1     20.5               44 GC,CG,UA,AU,UG,AA,CA GC,CG,UA,AU
3569 3569 23S 1 8 2895   v4 C:G cWW       Weak E   2.4                             97.4 41 CG  
3570 3570 23S 1 8 2895   v4 C:G cWW       Weak M 2.9   29.4 20.6 5.9   5.9 5.9   2.9           5.9 20.6 34 GC,UA,AU,GU,AA,AC,CA,UU GC,UA,AU
33 33 5S 1 9 111   v4 G:U cWW       Strong 3 42.5 0.7 0.3 2.5 52.5 0.2   0.2         0.5       0.8 610 GC,AU,GU CG,UA,GU,AC
34 34 5S 1 9 111   v4 G:U cWW       Strong B 63.6 0.7 0.7 3.6 28.8 0.7                     2.0 302 GC,AU,GU GC,CG,UA,AU
35 35 5S 1 9 111   v4 G:U cWW       Strong A 38.6     2.3 59.1                         44 GC,AU,GU  
36 36 5S 1 9 111   v4 G:U cWW       Strong E 24.1 0.7 0.3 1.0 72.1     0.3         1.0   0.3     294 GC,GU CG,UA,GU,AC
169 169 16S 1 9 25   v4 G:C cWW       Strong T 56.7 24.9 0.2 15.1 0.9 0.1 0.1 1.1 0.1   0.2     0.1 0.1   0.5 3661 GC,CG,AU GC,CG,UA,AU
170 170 16S 1 9 25   v4 G:C cWW       Strong 3 65.7 31.5     0.8 0.1   0.8           0.1 0.2   0.6 2878 GC,CG GC,CG
171 171 16S 1 9 25   v4 G:C cWW       Strong B 97.2       1.2 0.1   1.2           0.1 0.3   0.1 1946 GC GC,UG
172 172 16S 1 9 25   v4 G:C cWW       Strong A   99.3       0.7                       148 CG  
173 173 16S 1 9 25   v4 G:C cWW       Strong C 97.6             1.6     0.8             123 GC  
174 174 16S 1 9 25   v4 G:C cWW       Strong E   97.1 0.1     0.3     0.1 0.1 0.1     0.1     2.0 784 CG CG,UA
175 175 16S 1 9 25   v4 G:C cWW       Strong M 9.5 0.5 1.1 83.8 1.4   0.3 2.3 0.3   0.6           0.3 662 GC,AU,AC GC,CG,UA,AU
37 37 5S 1 10 110   v4 G:C cWW       Strong 3 51.1 2.5 5.6 32.6 5.2 0.3 0.7 1.1 0.2 0.2         0.2 0.2 0.3 611 GC,CG,UA,AU,GU GC,CG,UA,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");