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).

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

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Suggested facets: reference_base_pair, GC, GU, UG, AC, AG, CA, CC, CU, GA, GG, UC

conformation 7

strength 5

molecule 2

tertiary_type 1

  • 3°: base pair · 82 ✖

header_format 1

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
3647 3647 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong M 10.0 0.4 2.2 4.8 0.4                     0.4 81.6 229 GC,UA,AU GC,CG,UA,AU
357 357 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong M   10.2 1.4 19.9 1.3 0.1 0.1 5.6   0.3 10.6 26.0 0.5   0.9 22.4 0.7 773 CG,AU,AC,CC,CU,UU UA,AC,CU
3759 3759 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant M   0.4 4.7 3.9     0.4 0.9 2.1             0.9 86.6 233 UA,AU,AG CG,UA,AU
441 441 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak M 1.2   0.4 0.7 1.2       0.1       6.9 0.1   0.1 89.2 830 GA AU,GA
602 602 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong M 3.1 0.5 3.0 15.6 1.0 0.6 20.6 16.7 7.5 2.6 1.6 0.8 2.2 0.6 3.0 5.3 15.4 832 GC,UA,AU,AA,AC,AG,CA,GA,UC,UU GC,CG,AA,UU
679 679 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong M   3.2 1.0 5.5 0.1 0.6           0.1       0.2 89.1 832 CG,AU CG,UA,AU
700 700 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong M     0.1   0.1 0.1 0.2   0.2               99.2 832   GU,UG,AA
847 847 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong M 0.1   0.4 0.2 2.0 0.1 0.1 1.0     81.2       1.3 8.1 5.4 830 GU,CC,UU AA,CC,UU
4396 4396 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong M   7.9 0.4 1.2   2.0             0.4       88.2 254 CG,UG CG,UA,AU
1022 1022 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong M   0.1 1.9 0.5 0.2 0.1 0.1 0.1 4.5           2.4   90.0 994 AG,UC GU,AG,UC
1057 1057 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong M   0.2 97.5   0.1 0.8               0.1   0.5 0.6 830 UA CG,UA,GU
4480 4480 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? M     0.8       0.4     1.2     2.0       95.8 255 GA  
1176 1176 16S 17 438 496   v4 U:A tWH   3°: base pair   Strong M     4.3 0.1     1.7           0.4     0.2 93.3 835 UA UA,AU
1183 1183 16S 17 440 497   v4 C:G cWW   3°: base pair   Strong M   3.2 0.7 0.2 0.1 0.5 1.3   0.2     0.1 0.4 0.1 0.1 0.1 92.8 835 CG CG,GU,AA,UC
1190 1190 16S 17 441 493   v4 A:A cWW   3°: base pair   Strong M 0.4   0.5 0.2 0.4   0.5   0.2     0.1 1.0 2.2 0.1 1.0 93.6 835 GG AA,GG,UU
1232 1232 16S 17 450 483   v4 G:C cWW   3°: base pair   Strong M 3.4   0.4 0.1 0.1   1.2         0.2 0.1   0.2 0.1 94.1 835 GC GC,AA,CU
4592 4592 23S 24.1 531 2018   v4 C:G cWW   3°: base pair   Strong M 0.8 76.1 5.9 3.1   0.8 4.7   0.4 1.2 0.4 0.4 0.8 0.4   0.4 4.7 255 CG,UA,AU,AA GC,CG,UA,AU
4627 4627 23S 25 537 556   v4 G:A cWW   3°: base pair   Strong M     2.3 2.7 0.4   8.6 0.8         3.9       81.3 256 UA,AU,AA,GA GU,AA
4634 4634 23S 25 538 555   v4 A:G cWW   3°: base pair   Weak M     1.2 4.3 0.8   6.2   5.5     0.4 0.4       81.3 256 AU,AA,AG GU,AA
4683 4683 23S 25.1 563 578   v4 A:G cWW   3°: base pair   Strong M     1.9     0.4 54.2   37.0       1.9       4.6 262 AA,AG UG,AA
4697 4697 23S 25.1 565 576   v4 C:U cWW   3°: base pair   Strong M 0.8 6.5     0.4             86.6     1.1 0.4 4.2 262 CG,CU CU,UC
1435 1435 16S 19.1 575 880   v4 G:C cWW   3°: base pair   Strong M 81.3 0.2 0.3 8.9 0.5 0.1 1.2 4.6 0.1   0.2 0.1 0.1 0.1 1.7   0.4 887 GC,AU,AC GC,CG,UA,AU
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
1624 1624 16S 21 611 629   v4 C:A cWW   3°: base pair   Strong M 0.1 0.1 0.5 0.4 0.1 1.9 0.1   0.1 0.1           0.1 96.6 1021   GC,AU,UG,CA
4900 4900 23S 31 637 651   v4 A:G cWW   3°: base pair   Strong M     1.5 1.1 0.4 0.8 1.1   2.3               92.8 262 AG UA,GU,AG
1729 1729 16S 22 663 742   v4 A:G cWW   3°: base pair   Strong M 2.2 1.2 4.7 6.7 3.2 1.0 13.3 9.6 4.1 5.5 6.3 5.8 1.8 0.2 4.0 8.5 21.7 895 GC,UA,AU,GU,AA,AC,AG,CA,CC,CU,UC,UU AA,CC,GG,UU
1792 1792 16S 23 674 716   v4 G:A cWW   3°: base pair   Strong M 5.6   1.6 0.4   0.1 68.8 0.2 1.7 0.9     14.0 0.2 0.2 0.2 6.1 900 GC,AA,GA GC,AA,UU
4949 4949 23S 32 674 806   v4 G:C cWW   3°: base pair   ??? M 94.7   3.1 0.8   0.4         0.4           0.8 262 GC,UA GC,UA,AU
5075 5075 23S 33 698 763   v4 C:G cWW   3°: base pair   Strong M   77.2 11.0 3.8   1.5 2.3   0.4 0.8   0.4     0.8 0.4 1.5 263 CG,UA,AU,AA CG,UA,AU
5152 5152 23S 34 713 718   v4 G:A cWW   3°: base pair   Strong M   0.4 2.3 0.8   0.4       3.0     1.1 0.4     91.7 263 UA,CA AU,UG,CA
1876 1876 16S 23.1 722 733   v4 G:G tWW   3°: base pair   Strong M 0.2 5.2 10.2 12.1 1.8 4.4 19.3 1.9 24.0 3.3 0.9 1.0 1.2 6.0 1.1 2.8 4.5 896 CG,UA,AU,UG,AA,AG,CA,GG,UU UA,GU,AG,CC
5369 5369 23S 38 847 933   v4 U:A cWW   3°: base pair   Strong M     1.1 7.1 0.4   2.6 0.4 0.4 0.8           0.4 86.9 266 AU,AA UA,AU
5439 5439 23S 38 857 920   v4 G:A cWW   3°: base pair   Strong M     1.5 3.0 1.1 0.4 3.0   3.8       4.1     0.4 82.7 266 AU,AA,AG,GA AG,GA,UU
2310 2310 16S 30 945 1236   v4 G:A cWW   3°: base pair   Strong M 0.3     0.1 0.1   3.0   0.2       96.4         1152 AA,GA AG,GA
2576 2576 16S 33.2 1026 1035   v4 G:A cWW   3°: base pair   Strong M     0.3                 0.2         99.6 1153   UA,CU
5803 5803 23S 42 1032 1122   v4 A:G cWW   3°: base pair   Strong M 0.7 1.1 3.3 2.9     2.5 0.4 4.0 0.4     0.4     0.7 83.7 276 UA,AU,AA,AG GC,UA,AG
5845 5845 23S 42 1039 1116   v4 A:G cWW   3°: base pair   Strong M 1.1   6.2 5.1 0.4   2.5 0.4 0.4   1.4           82.6 276 UA,AU,AA UA,AU,CC
5852 5852 23S 42 1040 1115   v4 A:G cWW   3°: base pair   Strong M 2.2 1.1 4.7 6.5 0.7   0.4   0.4       0.7       83.4 276 GC,UA,AU GC,CG,UA,AU
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
2681 2681 16S 34 1062 1194   v4 U:U cWW   3°: base pair   Strong M   0.1 23.1 0.2   0.6       0.1   1.7     0.3 73.6 0.4 1151 UA,UU CA,UU
5957 5957 23S 43.1 1082 1086   v4 U:A tWW   3°: base pair   Strong M 0.4 0.7 13.1 3.3 0.4   0.4     0.4       0.4 0.4 2.5 78.2 275 UA,AU,UU GC,CG,UA,AU
5964 5964 23S 44 1087 1102   v4 G:C cWW   3°: base pair   Strong M 74.6   5.8 12.3 2.2   0.7 0.4   0.7 0.4         0.7 2.3 276 GC,UA,AU,GU GC,UA,AU
6048 6048 23S 46 1196 1250   v4 C:G cWW   3°: base pair   Strong M 2.5 37.3 35.9 4.0 0.4 1.4 0.7   0.4 11.6         0.4 1.8 3.7 276 GC,CG,UA,AU,CA GC,CG,UA,AU
6090 6090 23S 46 1203 1242   v4 U:U cWW   3°: base pair   Strong M 0.4 0.4 68.5 4.0 0.4 1.8 1.1     0.4 1.4   2.9     9.8 9.2 276 UA,AU,GA,UU UA,AU,CC
6097 6097 23S 46 1204 1241   v4 A:A cWW   3°: base pair   Strong M 13.4   6.5 9.4   0.7 9.1     1.4     0.4     2.2 56.9 276 GC,UA,AU,AA,UU GC,UA,AU
6188 6188 23S 46.1 1263 2016   v4 U:U cWW   3°: base pair   Strong M     0.4 0.4           0.4 4.7         90.5 3.7 275 CC,UU CC,UU
3066 3066 16S 42 1303 1334   v4 C:G cWW   3°: base pair   Strong M   90.9 3.9 0.2 0.1 1.4     0.4         0.3   2.7 0.1 1132 CG,UA,UU CG,UA,AU
3073 3073 16S 42 1307 1330   v4 U:U cWW   3°: base pair   Strong M 0.8 0.1 0.1 13.1 2.4 0.8 21.4 14.3 10.0 0.4 1.9 4.6 0.4 0.4 0.3 27.8 1.4 1132 AU,GU,AA,AC,AG,CU,UU AA,CC,GG,UU
6412 6412 23S 51 1348 1598   v4 C:A cWW   3°: base pair   Significant M     16.7 2.5   0.7 3.3 2.5 0.4 14.1 1.8 0.7 0.4     0.4 56.6 276 UA,AU,AA,AC,CA UA,AC,CU
3178 3178 16S 43 1357 1365   v4 A:G cWW   3°: base pair   Strong M 0.1 0.8 1.8 0.5 0.2 0.7 8.0   82.5 0.8     1.7 2.5 0.2 0.2 0.3 1066 AA,AG,GG UA,GU,AG
6454 6454 23S 52 1359 1372   v4 A:U cWW   3°: base pair   Strong M 0.4 0.4 1.4 2.2     0.7 0.7   0.7 1.4       1.8 3.3 86.9 276 AU,UU AA,CC,UU
3185 3185 16S 44 1399 1504   v4 C:G cWW   3°: base pair   Strong M   88.7 10.0     1.2                     0.1 762 CG,UA CG,UA
3199 3199 16S 44 1402 1500   v4 C:A cWW   3°: base pair   Strong M           0.9       98.9     0.1       0.1 790 CA UG,CA
3220 3220 16S 44 1407 1494   v4 C:G cWW   3°: base pair   ??? M   99.8             0.1   0.1             800 CG  
3255 3255 16S 44 1413 1487   v4 A:G cWW   3°: base pair   Strong M 0.2 90.7 3.7 0.5 0.1 0.5 0.1   0.9 1.8   1.1 0.1     0.1 0.2 845 CG,UA GC,CG,UA,AU
6643 6643 23S 55 1425 1573   v4 G:G cWW   3°: base pair   Strong M   0.4 1.8 0.7 0.4 2.2           0.4   0.4 0.4   93.5 276 UG AU,UG
6916 6916 23S 59 1527 1544   v4 G:A No BP   3°: base pair   Strong M       0.4                         99.7 276    
6923 6923 23S 59 1528 1543   v4 A:G tHS   3°: base pair   Strong M                     0.4           99.7 276    
7147 7147 23S 62 1690 1697   v4 A:G tHS   3°: base pair   Strong M       0.7     2.5   10.5 3.2             83.0 277 AA,AG,CA AG,CA
7252 7252 23S 63.1 1752 1756   v4 C:G cWW   3°: base pair   Strong M 7.6 1.4 0.7 4.0     1.8                   84.4 277 GC,AU GC,CG,UA,AU
7406 7406 23S 66 1800 1817   v4 C:G tWW   3°: base pair   Strong M   70.3 1.8 1.4     0.4     2.8 1.1 0.7         21.6 283 CG,CA CG,UA,AU
7413 7413 23S 66 1803 1814   v4 A:G tHS   3°: base pair   Weak M     1.4 1.8   0.4 3.2 0.4 10.6 0.7   0.4         81.3 283 AA,AG UA,AG,CU
7560 7560 23S 68 1855 1887   v4 U:C cWW   3°: base pair   Strong M 1.9 1.9 0.3 1.0 1.9   2.3 0.6 2.3 0.3   1.3 1.0     0.3 84.9 311 AA,AG CG,GU,AA
7567 7567 23S 68 1856 1886   v4 U:U cWW   3°: base pair   Strong M 1.0 1.0 2.6 7.7 0.3     0.6         1.6       85.2 311 UA,AU GC,CG,UA,AU
7574 7574 23S 68 1858 1884   v4 A:G tHS/tSH   3°: base pair   Strong M 0.6 0.3 2.6 2.6 0.6   1.0   1.3 1.3     4.8       84.9 311 UA,AU,GA CG,AU,GA
7581 7581 23S 68 1859 1883   v4 U:U cWW   3°: base pair   Strong M   0.3 1.6 2.9 1.9 1.0 0.3   3.9           0.3 1.6 86.2 311 AU,AG UA,GU,AG
7679 7679 23S 69.1 1925 1929   v4 C:G tWW   3°: base pair   Strong M   93.9 3.2 1.3   1.0                   0.6   311 CG,UA CG,UA,AU
7980 7980 23S 75 2086 2233   v4 U:U cWW   3°: base pair   Strong M 14.2 1.9 22.0 38.5 2.3 1.6 1.9 4.9   3.9 0.3 0.3 0.6   1.9 2.6 2.9 309 GC,UA,AU,GU,AC,CA,UU GC,CG,UA,AU
8092 8092 23S 76 2104 2185   v4 C:U cWW   3°: base pair   Strong M 1.0 1.3 2.6 2.9   1.0   0.3       1.0 0.3   0.6 2.6 86.4 309 UA,AU,UU GC,CG,UA,AU
8127 8127 23S 76 2109 2180   v4 U:U cWW   3°: base pair   Weak M 1.3   3.6 0.6 0.3   0.3         0.3       5.8 87.6 309 UA,UU GC,AA,UU
8414 8414 23S 81.1 2282 2427   v4 G:C cWW   3°: base pair   Strong M 49.5 0.6 10.7 17.5 0.6   4.5 12.6     0.6         1.6 1.6 309 GC,UA,AU,AA,AC GC,CG,UA,AU
8610 8610 23S 86 2351 2366   v4 G:A cWW   3°: base pair   Weak M   0.3 26.2 4.9     36.2 2.3   4.5   0.3 5.2   1.6 1.0 17.4 309 UA,AU,AA,AC,CA,GA AA,CU,UC
8617 8617 23S 86 2352 2365   v4 A:G cWW   3°: base pair   Strong M     1.6 16.2 1.0 0.6 29.8 1.6 8.4 1.0 0.3 1.0     0.3 2.3 35.9 309 AU,AA,AG,UU AA,CC,UU
8827 8827 23S 90 2507 2582   v4 C:G cWW   3°: base pair   Strong M   18.3 81.7                             263 CG,UA CG,UA
8862 8862 23S 90 2512 2574   v4 C:G cWW   3°: base pair   Strong M   81.1 13.3 0.4   4.9                   0.4   264 CG,UA,UG CG,UA,AU
9184 9184 23S 96 2675 2732   v4 A:G cWW   3°: base pair   Strong M 0.4 0.8 5.2 4.0 6.4 0.8 2.0 1.2 2.0 5.6 0.4 2.0 1.2   1.6 2.0 64.4 250 UA,AU,GU,AA,AG,CA,CU,UU GU,AG,CA,UC
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
9443 9443 23S 99 2813 2887   v4 A:A cWW   3°: base pair   Strong M 2.3 4.5 13.6 29.5 2.3 2.3 4.5           2.3     6.8 31.8 44 GC,CG,UA,AU,GU,UG,AA,GA,UU GC,CG,UA,AU
9450 9450 23S 99 2814 2886   v4 A:A cWW   3°: base pair   Strong M 2.3 4.5 18.2 11.4     9.1         6.8       2.3 45.4 44 GC,CG,UA,AU,AA,CU,UU GC,CG,UA,AU
9548 9548 23S 101 2844 2872   v4 G:A cWW   3°: base pair   Strong M     4.4 17.8     31.1   6.7 4.4     4.4   4.4 2.2 24.5 45 UA,AU,AA,AG,CA,GA,UC,UU AA,UC
9555 9555 23S 101 2845 2871   v4 U:U cWW   3°: base pair   No Support M 4.4   20.0 26.7 11.1 2.2       2.2       8.9   6.7 17.8 45 GC,UA,AU,GU,UG,CA,GG,UU UA,AU,GG
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");