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).

590 rows where tertiary_type = "3°: base pair" sorted by position_1

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group_code 7

  • 3 86
  • A 86
  • B 86
  • E 86
  • C 82
  • M 82
  • T 82

conformation 7

strength 5

molecule 3

header_format 2

tertiary_type 1

  • 3°: base pair · 590 ✖
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
3641 3641 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong T 49.1 8.0 2.2 5.0 0.6 0.7 5.9   0.4             0.1 27.8 678 GC,CG,UA,AU,AA GC,CG,AA,UU
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
3643 3643 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong B 97.6       1.2   1.2                     250 GC GC,AA
3644 3644 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong A 75.0 2.8 13.9 8.3                           36 GC,CG,UA,AU GC,CG,UA,AU
3645 3645 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong C 6.5   6.5       80.4   6.5                 46 GC,UA,AA,AG GC,AA
3646 3646 23S 2 30 510   v4 G:C cWW   3°: base pair   Strong E 30.8 44.4 1.7 17.1   4.3                     1.8 117 GC,CG,AU,UG GC,CG,UA,AU
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
351 351 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong T 18.0 65.2 3.2 2.5 0.2 0.4   0.7   0.1 1.4 3.3 1.1 0.5 0.1 2.7 0.4 6093 GC,CG,UA,AU,CU,UU 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
353 353 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong B   92.6 3.9     0.5             1.6 0.7     0.3 4038 CG,UA CG,UA
354 354 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong A 91.0 0.5 4.5               0.5     1.0     2.5 199 GC,UA GC,CG,UA
355 355 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong C   96.8               0.6 1.3     0.6     0.6 156 CG  
356 356 16S 5 47 361   v4 C:G cWW   3°: base pair   Strong E 97.6   1.7 0.1       0.1         0.1   0.1   0.2 936 GC GC,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
3753 3753 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant T   0.4 1.5 2.1     0.8 0.3 66.2         0.1   0.3 28.1 719 AU,AG UA,AG
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  
3755 3755 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant B                 100.0                 252 AG  
3756 3756 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant A   5.6   11.1         83.3                 36 CG,AU,AG  
3757 3757 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant C             6.2   93.8                 81 AA,AG  
3758 3758 23S 5 53 117   v4 A:G tHS   3°: base pair   Significant E       1.7         96.6         0.9     0.9 117 AG  
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
435 435 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak T 3.1 0.3 13.9 0.7 0.3 0.3 0.2   0.1 0.2     68.8 0.4   0.2 11.6 6584 GC,UA,GA AU,UG,GA
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
437 437 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak B 0.7   0.1   0.2 0.3 0.2     0.3     97.0 0.5     0.6 4427 GA UG,GA
438 438 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak A 78.9     6.0 0.5 1.0             11.6 0.5     1.5 199 GC,AU,GA GC,AU,UG
439 439 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak C 1.8   2.4 0.6 0.6               92.7 1.8       164 UA,GA AU,GA
440 440 16S 6 68 101   v4 G:A cWW   3°: base pair   Weak E   1.5 93.1 2.6   0.3 0.2   0.2 0.2   0.1 0.2 0.1   1.3 0.1 973 UA,AU 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
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
122 122 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong B     2.6 0.3     3.0 0.3 5.0   0.3   88.1 0.3       302 UA,AA,AG,GA AG,CC,GA
123 123 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong A 52.3 6.8 18.2 4.5 2.3 2.3                 9.1 4.5   44 GC,CG,UA,AU,GU,UG,UC,UU GC,CG,UA,AU
124 124 5S 3 75 101 Tertiary legacy     B 3°: base pair   Strong E       57.7     2.7 20.8 18.8                 298 AU,AA,AC,AG  
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
126 126 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong B         0.3   29.8 0.3 0.7 0.3     1.0 67.5       302 AA,GG AA,GG
127 127 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong A 31.8 11.4 11.4 20.5 4.5 6.8       2.3         2.3 9.1   44 GC,CG,UA,AU,GU,UG,CA,UC,UU GC,CG,UA,AU
128 128 5S 3 76 100 Tertiary legacy     B 3°: base pair   Strong E                         99.7 0.3       298 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
130 130 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong B     98.7     0.3 0.3                   0.7 302 UA  
131 131 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong A   13.6 86.4                             44 CG,UA CG,UA
132 132 5S 3 77 99 Tertiary legacy     B 3°: base pair   Strong E     99.7     0.3                       298 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
134 134 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant B     0.3 1.3     10.6 0.7 85.8       0.3 0.7     0.3 302 AA,AG AG,GA
135 135 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant A     2.3       2.3   86.4 9.1               44 UA,AA,AG,CA AG,CA
136 136 5S 3 78 98 Tertiary legacy     B 3°: base pair   Significant E                 100.0                 298 AG  
596 596 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong T 1.4 13.5 19.1 2.7 0.4 22.5 2.5 2.0 29.0 0.5 0.3 0.1 1.9 0.3 0.4 0.7 2.5 6964 CG,UA,AU,UG,AA,AC,AG GC,UA,AG,CU
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
598 598 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong B 1.5 17.8 11.5 1.0 0.4 25.1 0.1 0.1 38.0 0.2 0.2   2.4 0.3 0.1   1.2 4743 CG,UA,UG,AG,GA GC,UA,AG
599 599 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong A   38.9 11.1     50.0                       216 CG,UA,UG  
600 600 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong C     0.6 4.8   1.8     91.0       0.6 0.6     0.6 167 AU,AG UA,AG
601 601 16S 7 129 232   v4 A:G cWW   3°: base pair   Strong E 0.1 0.8 72.3   0.1 25.7 0.1   0.4       0.1 0.1   0.2 0.1 1015 UA,UG CG,UA,GU
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
673 673 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong T 8.1 17.8 1.9 6.8 0.3 15.1 0.3 0.2 0.2 0.1   0.3 0.1 28.0   9.4 11.4 7032 GC,CG,AU,UG,GG,UU AA,GG,UU
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
675 675 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong B 6.7 24.1 2.4 2.8 0.2 21.8 0.1 0.1 0.3 0.1   0.1 0.1 40.8   0.1 0.3 4809 GC,CG,UA,AU,UG,GG UA,AU,GG
676 676 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong A 55.1 29.0 2.8 6.5   5.6       0.9               214 GC,CG,UA,AU,UG GC,CG,UA,AU
677 677 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong C 72.6     17.9 1.8   0.6 0.6         0.6 3.6     2.4 168 GC,AU,GG GC,AU
678 678 16S 8 145 177   v4 G:G cWW   3°: base pair   Strong E 0.3 0.3 0.1 24.8 1.2   1.3 0.9 0.2 0.1   2.0     0.1 64.6 4.3 1018 AU,CU,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
694 694 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong T 0.2     0.4 7.2 0.2 2.5 69.9 0.4 0.1 2.1 0.4 0.7 3.7 0.2 0.1 11.9 7096 GU,AA,AC,CC,GG GU,UG,AC,CA
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
696 696 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong B 0.1     0.4 10.5 0.3 1.1 79.6 0.2 0.1 0.6 0.5 0.8 5.4 0.1   0.3 4869 GU,AC,GG GU,UG,AC,CA
697 697 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong A       0.5     47.9 35.8 0.9   11.2 2.3       1.4   215 AA,AC,CC,CU AA,CC,UU
698 698 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong C     0.6 3.0     1.8 89.9 1.8   0.6     0.6     1.8 168 AU,AC UA,AC,GG
699 699 16S 8 152 169   v4 A:C tHW   3°: base pair   Strong E 0.4     0.1   0.2 1.3 83.6 1.0 0.6 9.8   0.9   1.4 0.2 0.6 1021 AC,CC UG,AC,GA
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
841 841 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong T     0.1 0.1 0.2     0.1     42.1 0.1     0.2 56.3 0.5 7222 CC,UU CC,UU
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
843 843 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong B                     25.2 0.1     0.1 74.3   4985 CC,UU CC,UU
844 844 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong A                     44.3       0.5 55.2   221 CC,UU CC,UU
845 845 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong C           0.6           0.6       98.8   170 UU  
846 846 16S 11 245 283   v4 U:U cWW   3°: base pair   Strong E               0.1   0.1 99.2         0.6   1024 CC CC,UU
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
4390 4390 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong T 10.1 59.5 0.6 0.4 0.1 2.6 0.1   0.1       0.4 0.2     25.7 892 GC,CG,UG GC,CG,UA,AU
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
4392 4392 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong B 27.4 68.7     0.4 1.8             1.1 0.7       281 GC,CG GC,CG
4393 4393 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong A 19.4 77.8       2.8                       36 GC,CG,UG GC,CG
4394 4394 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong C 3.0 94.0       1.0                     2.0 100 GC,CG GC,CG
4395 4395 23S 19.2 319 323   v4 G:C cWW   3°: base pair   Strong E 1.4 88.7 1.8 0.5   5.0 0.5   0.5               1.9 221 CG,UG GC,CG,UA,AU
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
1016 1016 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong T   14.2 1.5 0.1     0.1 0.1 71.5   0.1       0.3   12.0 7470 CG,AG UA,AG,CC
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
1018 1018 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong B   0.1         0.1 0.1 99.3               0.1 5065 AG  
1019 1019 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong A   12.7 42.1           43.0   2.2             228 CG,UA,AG,CC UA,AG,CC
1020 1020 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong C             1.2   98.8                 166 AG  
1021 1021 16S 13 321 332   v4 A:G cWW   3°: base pair   Strong E   99.7               0.2       0.1       1025 CG  
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
1051 1051 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong T 0.6 2.7 95.7 0.1   0.4       0.1           0.1 0.2 7180 CG,UA GC,CG,UA,AU
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
1053 1053 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong B 0.4   99.2 0.2           0.1               4947 UA GC,UA,AU
1054 1054 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong A 10.9 84.3 2.2               0.4           2.2 229 GC,CG,UA GC,CG,UA
1055 1055 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong C     98.2     1.8                       165 UA  
1056 1056 16S 15 367 393   v4 U:A cWW   3°: base pair   Strong E 0.1 0.1 98.0     1.8                       1017 UA GC,CG,UA
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
4474 4474 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? T   0.1 0.4     0.4 0.1     41.5     0.6       56.8 894 CA UG,CA
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
4476 4476 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? B   0.4       1.4       96.8             1.4 281 CA UG,CA
4477 4477 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? A                                 99.9 37    
4478 4478 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? C     1.0             96.0             3.0 100 CA  
4479 4479 23S 21 383 391   v4 C:A cWW   3°: base pair   ??? E     0.5                           99.6 221    
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  

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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");