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).

86 rows where group_code = 3 and tertiary_type = "3°: base pair" sorted by position_1

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Suggested facets: reference_base_pair, GU, AA, AC, CA, CC, CU, GA, GG, UC, UU

conformation 7

strength 5

molecule 3

header_format 2

tertiary_type 1

  • 3°: base pair · 86 ✖

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
3642 3642 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong 3 76.2 13.2 1.7 5.7 0.7 1.2 0.7                   0.4 403 GC,CG,AU GC,CG,UA,AU
352 352 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong 3 21.2 72.3 3.5     0.4         0.1   1.2 0.6     0.4 5173 GC,CG,UA GC,CG,UA
3754 3754 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant 3   0.5   1.5         97.5         0.2     0.2 405 AG  
436 436 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak 3 3.4 0.3 16.3 0.7 0.2 0.3 0.2   0.1 0.3     77.1 0.4   0.2 0.6 5599 GC,UA,GA CG,AU,GA
121 121 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong 3 1.1   1.6 27.3   1.3 3.9 11.5 11.1   0.2   40.9 0.2 0.5 0.2 0.2 611 AU,AA,AC,AG,GA AU,UG,CC,GA
125 125 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong 3 1.0       0.2   13.7 0.2 0.2 0.2     52.5 32.1       611 AA,GA,GG AC,GA
129 129 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong 3   1.0 98.7     0.2 0.2                     611 UA CG,UA
133 133 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant 3     0.3 0.5     5.2 0.3 92.3 0.7     0.2 0.3     0.2 611 AA,AG AG,CA
597 597 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong 3 1.2 15.7 21.8 0.8 0.3 26.1 0.1 0.1 30.3 0.2 0.1   1.9 0.2 0.1   1.0 5974 CG,UA,UG,AG GC,UA,AG
674 674 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong 3 7.4 20.3 2.1 6.6 0.3 17.5 0.3 0.3 0.3 0.1   0.4 0.1 32.5   11.0 0.9 6040 GC,CG,UA,AU,UG,GG,UU AA,GG,UU
695 695 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong 3 0.2     0.4 8.4 0.3 2.8 78.7 0.4 0.2 2.5 0.5 0.8 4.3 0.3 0.1 0.3 6105 GU,AA,AC,CC,GG GU,UG,AC,CA
842 842 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong 3                     38.0 0.1     0.1 61.5   6230 CC,UU CC,UU
4391 4391 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong 3 16.2 77.5 0.7 0.2 0.2 3.2 0.2   0.2       0.6 0.4     0.8 538 GC,CG,UG GC,CG,UA,AU
1017 1017 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong 3   16.7 1.5       0.1 0.1 81.2   0.1           0.1 6318 CG,AG UA,AG,CC
1052 1052 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong 3 0.7 3.1 95.4 0.1   0.3       0.1             0.1 6193 CG,UA GC,CG,UA,AU
4475 4475 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? 3   0.2 0.2     0.7       50.5             48.4 539 CA UG,CA
1171 1171 16S 17 438 496   v4 U:A tWH   3°: base pair   Strong 3     59.6     0.2 1.5   0.4       1.7 18.9 0.1 0.2 17.5 5934 UA,GG UA,GG
1178 1178 16S 17 440 497   v4 C:G cWW   3°: base pair   Strong 3 0.4 40.6 12.2 3.1   2.2 0.5   0.1 0.6 0.5 0.1 0.7 0.1 0.3 20.2 18.7 5948 CG,UA,AU,UG,UU CG,GA,UU
1185 1185 16S 17 441 493   v4 A:A cWW   3°: base pair   Strong 3 11.6 5.9 0.5 6.9 2.8 2.3 32.9 1.9 0.9 0.3   0.1 14.3 1.1 0.1   18.2 5937 GC,CG,AU,GU,UG,AA,GA GC,CG,AA
1227 1227 16S 17 450 483   v4 G:C cWW   3°: base pair   Strong 3 74.3 0.9 2.0 1.0   0.2   0.1     0.1   0.1 0.1     21.1 6047 GC,UA GC,CG,UA,AU
4587 4587 23S 24.1 531 2018   v4 C:G cWW   3°: base pair   Strong 3 4.0 36.4 11.9 5.0 1.9 1.9 34.0   0.5 0.7 1.0   1.4 0.5     0.7 420 GC,CG,UA,AU,AA GC,CG,AA
4622 4622 23S 25 537 556   v4 G:A cWW   3°: base pair   Strong 3 5.5 4.4 28.3 4.0 0.2 0.2 8.3   0.4     0.2 44.4 0.2   0.8 3.3 527 GC,CG,UA,AU,AA,GA CG,AU,GA
4629 4629 23S 25 538 555   v4 A:G cWW   3°: base pair   Weak 3 20.0 1.0   4.0 10.3 5.1 0.6   52.2         0.4   2.3 4.2 525 GC,AU,GU,UG,AG,UU GC,AG,UU
4678 4678 23S 25.1 563 578   v4 A:G cWW   3°: base pair   Strong 3   40.5 0.8     2.5 1.7   18.3       35.9 0.2     0.2 526 CG,UG,AG,GA CG,GA
4692 4692 23S 25.1 565 576   v4 C:U cWW   3°: base pair   Strong 3 45.8     0.4 0.8     0.6   0.2   50.0     1.9 0.4   526 GC,CU GC,CU
1430 1430 16S 19.1 575 880   v4 G:C cWW   3°: base pair   Strong 3 81.0     17.7 0.7     0.1           0.1     0.3 5604 GC,AU GC,AU
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
1619 1619 16S 21 611 629   v4 C:A cWW   3°: base pair   Strong 3 0.4 17.5 4.0 1.7 2.5 3.4 2.3 0.4 2.6 40.1 1.5 1.4 1.4 0.8 0.7 0.6 18.8 5858 CG,UA,GU,UG,AA,AG,CA GU,UG,AC,CA
4895 4895 23S 31 637 651   v4 A:G cWW   3°: base pair   Strong 3 5.0 2.1   0.4     0.2   52.8         0.6     39.0 521 GC,CG,AG GC,AG
1724 1724 16S 22 663 742   v4 A:G cWW   3°: base pair   Strong 3 0.6 6.5 4.5 0.1 0.2 8.8 0.5 0.1 78.2         0.2       6044 CG,UA,UG,AG GC,UA,AG
1787 1787 16S 23 674 716   v4 G:A cWW   3°: base pair   Strong 3 19.6 0.1   0.8 0.1 0.1             79.2       0.1 6092 GC,GA AU,UG,GA
4944 4944 23S 32 674 806   v4 G:C cWW   3°: base pair   ??? 3 99.2       0.2     0.2                 0.4 481 GC  
5070 5070 23S 33 698 763   v4 C:G cWW   3°: base pair   Strong 3 0.8 76.9 17.6 0.4   1.3       1.1 0.4 0.4 0.2 0.8     0.2 524 CG,UA GC,CG,UA,AU
5147 5147 23S 34 713 718   v4 G:A cWW   3°: base pair   Strong 3 35.8 8.4 1.0 1.0   0.2   0.2         52.8 0.4 0.2   0.2 523 GC,CG,GA CG,AU,GA,UC
1871 1871 16S 23.1 722 733   v4 G:G tWW   3°: base pair   Strong 3 0.1   2.1 0.1 0.7 0.1 29.7 0.1 2.4       1.4 63.1     0.1 6134 UA,AA,AG,GG AA,GG
5364 5364 23S 38 847 933   v4 U:A cWW   3°: base pair   Strong 3 0.4 6.5 25.2 25.8 0.8 2.5 0.4 0.6 0.4 0.2       1.2     36.0 489 CG,UA,AU,UG GC,CG,UA,AU
5434 5434 23S 38 857 920   v4 G:A cWW   3°: base pair   Strong 3 5.1 12.8 3.9 4.3 1.4 5.5 6.7 0.2 28.7   0.2   29.9     0.6 0.6 491 GC,CG,UA,AU,UG,AA,AG,GA AG,CC,GA,UU
2305 2305 16S 30 945 1236   v4 G:A cWW   3°: base pair   Strong 3             0.4   0.4 0.1     98.7       0.2 5356 GA AG,GA
2571 2571 16S 33.2 1026 1035   v4 G:A cWW   3°: base pair   Strong 3 0.7 18.5 2.4 0.3 0.1 0.9 0.1     0.1     23.1 0.1     53.7 5645 CG,UA,GA CG,AU,GA
5798 5798 23S 42 1032 1122   v4 A:G cWW   3°: base pair   Strong 3 43.3 0.2 0.2 1.3   4.0 0.4 0.4 48.2 0.2     1.1       0.6 473 GC,UG,AG GC,AG,CA
5840 5840 23S 42 1039 1116   v4 A:G cWW   3°: base pair   Strong 3 17.7 4.2 42.5 13.5 10.0 0.2 0.2 1.7 9.0         0.6 0.2   0.2 480 GC,CG,UA,AU,GU,AG GC,CG,UA,AU
5847 5847 23S 42 1040 1115   v4 A:G cWW   3°: base pair   Strong 3 9.1 5.6 52.1 9.8 1.0 1.9 0.4   12.4 6.8     0.6       0.2 482 GC,CG,UA,AU,AG,CA GC,UA,AG
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
2676 2676 16S 34 1062 1194   v4 U:U cWW   3°: base pair   Strong 3   1.8 17.5 0.1   2.0           0.1       78.3 0.2 5600 UA,UG,UU CG,UU
5952 5952 23S 43.1 1082 1086   v4 U:A tWW   3°: base pair   Strong 3   46.9 52.3     0.2             0.2       0.4 495 CG,UA CG,UA
5959 5959 23S 44 1087 1102   v4 G:C cWW   3°: base pair   Strong 3 94.7 0.8   3.9 0.2           0.2           0.2 491 GC,AU GC,CG,AU
6043 6043 23S 46 1196 1250   v4 C:G cWW   3°: base pair   Strong 3 0.2 93.4 3.9   0.2 0.8 0.2   0.2 0.2   0.2   0.4     0.2 488 CG,UA GC,CG,UA
6085 6085 23S 46 1203 1242   v4 U:U cWW   3°: base pair   Strong 3 31.2 5.9 15.0 23.9 0.6 0.8         0.2   0.4   0.2 21.5 0.4 494 GC,CG,UA,AU,UU GC,CG,UA,AU
6092 6092 23S 46 1204 1241   v4 A:A cWW   3°: base pair   Strong 3 15.9 3.7 12.4 5.3 1.2 36.8 18.3   0.2 0.4   0.4 1.0 0.6 0.2 3.0 0.6 492 GC,CG,UA,AU,UG,AA,UU GC,UG,AA,CU
6183 6183 23S 46.1 1263 2016   v4 U:U cWW   3°: base pair   Strong 3 40.3   0.5 1.6                 0.7 1.9   55.0   427 GC,UU GC,UU
3061 3061 16S 42 1303 1334   v4 C:G cWW   3°: base pair   Strong 3 18.3 81.0 0.1 0.3   0.1       0.1       0.1       5875 GC,CG GC,CG,UA,AU
3068 3068 16S 42 1307 1330   v4 U:U cWW   3°: base pair   Strong 3         0.1 0.1     0.1   2.5       0.2 97.1   5887 CC,UU AG,CC,UU
6407 6407 23S 51 1348 1598   v4 C:A cWW   3°: base pair   Significant 3 32.1   4.3 0.4 0.6 0.4 0.9     19.7             41.6 468 GC,UA,CA GC,AU,UG,CA
3173 3173 16S 43 1357 1365   v4 A:G cWW   3°: base pair   Strong 3 16.9 0.4 2.1 0.7   0.6 0.1 0.1 73.3 0.3     5.0 0.3       5803 GC,UA,AG,GA GC,UA,AG
6449 6449 23S 52 1359 1372   v4 A:U cWW   3°: base pair   Strong 3 4.5 0.8 1.4 55.3 0.2         0.2     0.2       37.2 486 GC,AU GC,CG,UA,AU
3180 3180 16S 44 1399 1504   v4 C:G cWW   3°: base pair   Strong 3   99.2       0.1       0.1 0.1 0.1         0.2 2677 CG  
3194 3194 16S 44 1402 1500   v4 C:A cWW   3°: base pair   Strong 3   0.2 0.1             99.4             0.2 2839 CA  
3215 3215 16S 44 1407 1494   v4 C:G cWW   3°: base pair   ??? 3   98.9       0.2       0.4 0.2 0.1   0.1     0.1 2836 CG  
3250 3250 16S 44 1413 1487   v4 A:G cWW   3°: base pair   Strong 3   1.6 22.1 0.3     0.1 0.1 75.5           0.2   0.1 3809 UA,AG UA,AG
6638 6638 23S 55 1425 1573   v4 G:G cWW   3°: base pair   Strong 3 1.4 7.4 12.8 26.2 0.2 18.0 0.4     0.2       33.1     0.2 484 CG,UA,AU,UG,GG UA,AU,GG
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
6918 6918 23S 59 1528 1543   v4 A:G tHS   3°: base pair   Strong 3 10.1 12.2 7.5 19.3 1.0 1.0 0.6 0.4 36.2               11.5 483 GC,CG,UA,AU,AG GC,UA,AG
7142 7142 23S 62 1690 1697   v4 A:G tHS   3°: base pair   Strong 3         0.7   7.9   80.1 3.1   0.7 0.2     7.2 0.2 458 AA,AG,CA,UU AG,CA,UU
7247 7247 23S 63.1 1752 1756   v4 C:G cWW   3°: base pair   Strong 3 35.8 47.4 9.8 1.1 0.9 2.6         0.2     0.9 0.9   0.4 458 GC,CG,UA,UG GC,CG,UA,AU
7401 7401 23S 66 1800 1817   v4 C:G tWW   3°: base pair   Strong 3   66.6 0.9 29.5 0.2 0.2 0.4 0.4 0.2               1.5 458 CG,AU CG,UA,AU
7408 7408 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak 3 0.9 0.7 0.2 0.9 37.3   0.2 2.0 55.9   0.2         0.4 1.3 456 GU,AC,AG UA,GU,AG,CC
7555 7555 23S 68 1855 1887   v4 U:C cWW   3°: base pair   Strong 3 8.8     8.6 22.4     2.0   0.2 0.4 0.7     13.6 0.2 43.0 455 GC,AU,GU,AC,UC GU,CA,UC
7562 7562 23S 68 1856 1886   v4 U:U cWW   3°: base pair   Strong 3 13.2 0.4 0.2 24.2                       18.9 43.1 455 GC,AU,UU GC,CG,UA,AU
7569 7569 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong 3   0.4         0.7   20.4       35.3       43.2 456 AG,GA AG,GA
7576 7576 23S 68 1859 1883   v4 U:U cWW   3°: base pair   Strong 3 1.3 0.4   0.2 0.7   0.4 0.4 34.8         0.2   18.6 42.9 457 AG,UU GC,AG,UU
7674 7674 23S 69.1 1925 1929   v4 C:G tWW   3°: base pair   Strong 3   54.8       44.7           0.2         0.2 436 CG,UG  
7975 7975 23S 75 2086 2233   v4 U:U cWW   3°: base pair   Strong 3   2.1 49.2 0.9           13.7     0.2     33.6 0.2 437 CG,UA,CA,UU CG,UA,AU
8087 8087 23S 76 2104 2185   v4 C:U cWW   3°: base pair   Strong 3 4.6 23.4 39.9 8.3 3.2 6.2   0.2       10.6     2.3 1.4   436 GC,CG,UA,AU,GU,UG,CU,UC GC,CG,UA,AU
8122 8122 23S 76 2109 2180   v4 U:U cWW   3°: base pair   Weak 3 34.1   5.0 0.2   2.3       0.7   0.2     0.9 56.3 0.2 437 GC,UA,UG,UU GC,CA,UU
8409 8409 23S 81.1 2282 2427   v4 G:C cWW   3°: base pair   Strong 3 94.7 1.2 3.0 0.2 0.9                         434 GC,UA GC,CG,UA,AU
8605 8605 23S 86 2351 2366   v4 G:A cWW   3°: base pair   Weak 3 9.6 1.4 1.8 5.5 2.1 0.5 7.1   0.2       71.5 0.2     0.2 438 GC,AU,GU,AA,GA CG,AU,GA
8612 8612 23S 86 2352 2365   v4 A:G cWW   3°: base pair   Strong 3 1.4 5.7 4.6 32.9     4.8   50.2     0.2 0.2         438 CG,UA,AU,AA,AG GC,UA,AG,CU
8822 8822 23S 90 2507 2582   v4 C:G cWW   3°: base pair   Strong 3   100.0                               418 CG  
8857 8857 23S 90 2512 2574   v4 C:G cWW   3°: base pair   Strong 3 0.2 97.4 0.7             0.7 0.7           0.2 418 CG GC,CG,UA
9179 9179 23S 96 2675 2732   v4 A:G cWW   3°: base pair   Strong 3 0.2 3.1 1.4 0.7 2.4 0.5 0.2 0.5 54.5 5.3 0.5 0.5 1.9 0.7 11.1 15.9 0.4 415 CG,GU,AG,CA,UC,UU GC,AG,CA,UU
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
9438 9438 23S 99 2813 2887   v4 A:A cWW   3°: base pair   Strong 3 24.2 26.4 33.4 4.6 0.3   5.5         1.8 0.3 0.6   1.2 1.5 326 GC,CG,UA,AU,AA GC,CG,UA,AU
9445 9445 23S 99 2814 2886   v4 A:A cWW   3°: base pair   Strong 3 0.9 64.7 9.5 1.5   10.1 8.0   0.3 0.6 1.2 1.2       0.6 1.2 326 CG,UA,UG,AA GC,CG,UA,AU
9543 9543 23S 101 2844 2872   v4 G:A cWW   3°: base pair   Strong 3 9.0 0.9 2.1 0.9 4.2 0.9 4.5   30.1   0.9   17.2 5.7 0.3 20.8 2.4 332 GC,UA,GU,AA,AG,GA,GG,UU AG,CC,GA,UU
9550 9550 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support 3 21.5 3.3   16.0 19.0 3.0     6.6 0.3   0.6   0.3   29.0 0.3 331 GC,CG,AU,GU,UG,AG,UU GC,AG,CA,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

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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");