3D RNA from evolutionary couplings

Caleb Weinreb, Torsten Gross, Chris Sander, Debora S. Marks

Supplementary Tables from Paper

Supplementary Table 1. Summary of 182 RFAM families with EC predictions
Supplementary Table 2. Mapping to RFAM reduced numbering
Supplementary Table 3. Mapping from RFAM reduced numbering to PDB numbering
Supplementary Table 4. Annotated lists of contacts from 22 RFAM families.

Online data

Here we provide data on evolutionary couplings (ECs) for 182 RNA families from RFAM, computed using a global maximum entropy probability model that is available for download here. Each EC score represents the strength of co-variation between two RNA nucleotides and can be used to infer 3D contacts in the folded RNA. Before computing ECs for an RFAM alignment, we remove all columns with > 50% gaps, producing an RFAM reduced mapping that maps the the original RFAM numbering to our new numbering with highly gapped columns removed. 22 of the 182 RFAM alignments have a PDB structure for one member of the family. For each of these, we created a PDB mapping that maps our column-reduced alignment to the PDB structure. Below, we present validation data on the 22 families with a structure, as well as predicted contacts for 160 RFAM families without a known structure. Some if this data is also contained in the supplementary tables (above) from the paper. Table column names are defined below.

Column name Description
L Length of the reduced alignment (i.e. number of columns)
M Total number of sequences in the alignment
Meff Effective number of sequences in the alignment (similar sequences are down-weighted)
RFAM reduced mapping Maps RFAM numbering to our numbering where highly gapped columns have been removed
PDB mapping Maps our numbering (RFAM reduced) to PDB numbering
Top ECs (annotated) / EC file List of nucleotide pairs ranked by EC score, annotated when a PDB structure is available
Contact map Figure showing top ranking ECs (tdumbnails link to high resolution pdf)
TP curve Figure showing mean true positive rate versus number of contacts

Evolutionary couplings for 22 RFAM families with a structure (validation)

RFAM ID Name L M Meff RFAM reduced mapping PDB mapping Top ECs (annotated) Contact map TP curve
RF00001 5S ribosomal RNA 120 229497 24160.1 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00002 5.8S ribosomal RNA 155 375612 1197.3 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00005 tRNA 73 298470 3533.2 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00010 Bacterial RNase P class A 359 6397 1215.1 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00017 Metazoan signal recognition particle RNA 300 22685 4358.5 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00023 transfer-messenger RNA 366 5983 1558.9 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00050 FMN riboswitch (RFN element) 135 4516 367.1 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00059 TPP riboswitch (THI element) 105 11197 2249.5 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00162 SAM riboswitch (S box leader) 108 4757 585.7 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00167 Purine riboswitch 103 2427 471.1 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00169 Bacterial small signal recognition particle RNA 99 5622 637.2 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00174 Cobalamin riboswitch 188 9056 3190.6 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00177 Bacterial small subunit ribosomal RNA 1547 744489 1086.7 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00234 glmS glucosamine-6-phosphate activated ribozyme 161 842 203.6 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00380 ykoK leader 170 1493 92.2 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF00504 Glycine riboswitch 91 6875 895.1 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF01734 crcB RNA 65 1267 351.9 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF01786 Cyclic di-GMP-II riboswitch 86 237 81.6 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF01831 THF riboswitch 100 598 123.1 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF01852 Selenocysteine transfer RNA 91 1959 157.2 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF01960 Eukaryotic small subunit ribosomal RNA 1753 62908 1603.2 Reduced aligment PDB map Annotated ECs Contact map TP rates
RF02001 Group II catalytic intron D1-D4-3 174 2450 374.0 Reduced aligment PDB map Annotated ECs Contact map TP rates

Evolutionary couplings for 160 RFAM families without a structure (prediction)

RFAM ID Name L M Meff RFAM reduced mapping EC file Contact map
RF00003 U1 spliceosomal RNA 165 16344 2356.3 Reduced aligment ECs
RF00004 U2 spliceosomal RNA 192 11870 1930.5 Reduced aligment ECs
RF00006 Vault RNA 101 600 173.1 Reduced aligment ECs
RF00007 U12 minor spliceosomal RNA 151 539 106.2 Reduced aligment ECs
RF00009 Nuclear RNase P 295 895 370.5 Reduced aligment ECs
RF00012 Small nucleolar RNA U3 219 3110 477.4 Reduced aligment ECs
RF00013 6S / SsrS RNA 187 3521 648.2 Reduced aligment ECs
RF00015 U4 spliceosomal RNA 139 9417 2328.9 Reduced aligment ECs
RF00016 Small nucleolar RNA SNORD14 95 1672 203.6 Reduced aligment ECs
RF00019 Y RNA 101 22242 1192.6 Reduced aligment ECs
RF00020 U5 spliceosomal RNA 117 5700 530.7 Reduced aligment ECs
RF00026 U6 spliceosomal RNA 107 72126 6991.8 Reduced aligment ECs
RF00027 let-7 microRNA precursor 85 1263 57.5 Reduced aligment ECs
RF00028 Group I catalytic intron 447 59999 2087.7 Reduced aligment ECs
RF00029 Group II catalytic intron 77 51464 1297.7 Reduced aligment ECs
RF00030 RNase MRP 266 424 170.4 Reduced aligment ECs
RF00031 Selenocysteine insertion sequence 1 64 1278 60.6 Reduced aligment ECs
RF00032 Histone 3' UTR stem-loop 47 11099 550.5 Reduced aligment ECs
RF00045 Small nucleolar RNA SNORA73 family 205 1032 237.3 Reduced aligment ECs
RF00047 mir-2 microRNA precursor 73 381 63.8 Reduced aligment ECs
RF00049 Small nucleolar RNA SNORD36 77 597 77.3 Reduced aligment ECs
RF00053 mir-7 microRNA precursor 89 348 48.5 Reduced aligment ECs
RF00056 Small nucleolar RNA SNORA71 135 613 100.8 Reduced aligment ECs
RF00062 HgcC family RNA 110 154 115.3 Reduced aligment ECs
RF00066 U7 small nuclear RNA 63 5881 134.8 Reduced aligment ECs
RF00067 Small nucleolar RNA SNORD15 142 477 82.4 Reduced aligment ECs
RF00069 Small nucleolar RNA SNORD24 80 536 81.1 Reduced aligment ECs
RF00073 mir-156 microRNA precursor 91 789 55.5 Reduced aligment ECs
RF00075 mir-166 microRNA precursor 116 1106 201.7 Reduced aligment ECs
RF00080 yybP-ykoY leader 116 1882 206.5 Reduced aligment ECs
RF00086 Small nucleolar RNA SNORD27 79 291 47.3 Reduced aligment ECs
RF00089 Small nucleolar RNA SNORD31 71 280 50.6 Reduced aligment ECs
RF00091 Small nucleolar RNA SNORA62/SNORA6 family 155 714 181.2 Reduced aligment ECs
RF00092 Small nucleolar RNA SNORA63 132 712 130.7 Reduced aligment ECs
RF00093 Small nucleolar RNA SNORD18 72 576 91.3 Reduced aligment ECs
RF00096 U8 small nucleolar RNA 136 794 148.1 Reduced aligment ECs
RF00097 Plant small nucleolar RNA R71 108 11540 466.6 Reduced aligment ECs
RF00099 Small nucleolar RNA SNORD22 127 288 63.6 Reduced aligment ECs
RF00100 7SK RNA 311 21885 8715.2 Reduced aligment ECs
RF00104 mir-10 microRNA precursor family 76 637 40.6 Reduced aligment ECs
RF00105 Small nucleolar RNA SNORD115 83 2565 107.2 Reduced aligment ECs
RF00106 RNAI 106 1687 67.3 Reduced aligment ECs
RF00108 Small nucleolar RNA SNORD116 94 1854 111.6 Reduced aligment ECs
RF00114 Ribosomal S15 leader 117 1082 110.3 Reduced aligment ECs
RF00127 t44 RNA 89 1075 109.9 Reduced aligment ECs
RF00133 Small nucleolar RNA Z195/SNORD33/SNORD32 family 86 618 138.8 Reduced aligment ECs
RF00134 Small nucleolar RNA Z196/R39/R59 family 86 418 99.8 Reduced aligment ECs
RF00139 Small nucleolar RNA SNORA72 133 548 102.8 Reduced aligment ECs
RF00140 Alpha operon ribosome binding site 111 1226 93.7 Reduced aligment ECs
RF00147 Small nucleolar RNA SNORD34 80 202 45.0 Reduced aligment ECs
RF00155 Small nucleolar RNA SNORA66 134 246 79.7 Reduced aligment ECs
RF00156 Small nucleolar RNA SNORA70 136 2128 499.5 Reduced aligment ECs
RF00163 Hammerhead ribozyme (type I) 46 49036 54.5 Reduced aligment ECs
RF00168 Lysine riboswitch 180 2422 439.7 Reduced aligment ECs
RF00181 Small nucleolar RNA SNORD113/SNORD114 family 75 2257 251.9 Reduced aligment ECs
RF00190 Small nucleolar RNA SNORA16B/SNORA16A family 136 331 82.7 Reduced aligment ECs
RF00191 Small nucleolar RNA SNORA57 150 336 110.4 Reduced aligment ECs
RF00198 SL1 RNA 106 1802 105.2 Reduced aligment ECs
RF00213 Small nucleolar RNA R38 89 617 103.9 Reduced aligment ECs
RF00218 Small nucleolar RNA SNORD46 84 365 74.4 Reduced aligment ECs
RF00230 T-box leader 216 16195 3389.8 Reduced aligment ECs
RF00263 Small nucleolar RNA SNORA68 134 388 114.1 Reduced aligment ECs
RF00272 Small nucleolar RNA SNORA67 143 352 79.7 Reduced aligment ECs
RF00274 Small nucleolar RNA SNORD57 73 137 42.6 Reduced aligment ECs
RF00277 Small nucleolar RNA SNORD49 72 196 38.9 Reduced aligment ECs
RF00284 Small nucleolar RNA SNORD74 81 283 53.7 Reduced aligment ECs
RF00309 Small nucleolar RNA snR60/Z15/Z230/Z193/J17 97 517 156.7 Reduced aligment ECs
RF00321 Small nucleolar RNA Z247 140 506 145.4 Reduced aligment ECs
RF00322 Small nucleolar RNA SNORA31 131 1102 223.1 Reduced aligment ECs
RF00324 Small nucleolar RNA MBII-202 85 187 43.5 Reduced aligment ECs
RF00334 Small nucleolar RNA SNORA3/SNORA45 family 132 533 95.2 Reduced aligment ECs
RF00340 Small nucleolar RNA SNORA36 family 133 454 98.1 Reduced aligment ECs
RF00343 Small nucleolar RNA Z122 90 219 48.3 Reduced aligment ECs
RF00373 Archaeal RNase P 289 463 168.4 Reduced aligment ECs
RF00375 HIV primer binding site (PBS) 100 4343 128.0 Reduced aligment ECs
RF00379 ydaO/yuaA leader 145 1656 531.1 Reduced aligment ECs
RF00391 RtT RNA 131 2746 108.2 Reduced aligment ECs
RF00392 Small nucleolar RNA SNORA5 135 431 109.3 Reduced aligment ECs
RF00396 Small nucleolar RNA SNORA13 135 227 80.1 Reduced aligment ECs
RF00400 Small nucleolar RNA SNORA28 127 231 64.9 Reduced aligment ECs
RF00402 Small nucleolar RNA SNORA25 129 833 196.7 Reduced aligment ECs
RF00405 Small nucleolar RNA SNORA44 132 414 89.1 Reduced aligment ECs
RF00406 Small nucleolar RNA SNORA42/SNORA80 family 137 1074 276.0 Reduced aligment ECs
RF00408 Small nucleolar RNA SNORA1 136 400 105.3 Reduced aligment ECs
RF00409 Small nucleolar RNA SNORA7 139 26339 1327.9 Reduced aligment ECs
RF00410 Small nucleolar RNA SNORA2/SNORA34 family 138 1401 114.2 Reduced aligment ECs
RF00411 Small nucleolar RNA SNORA9 134 431 91.4 Reduced aligment ECs
RF00413 Small nucleolar RNA SNORA19 131 521 142.0 Reduced aligment ECs
RF00420 Small nucleolar RNA SNORA61 124 1271 785.4 Reduced aligment ECs
RF00421 Small nucleolar RNA SNORA32 123 540 77.0 Reduced aligment ECs
RF00425 Small nucleolar RNA SNORA18 133 623 132.8 Reduced aligment ECs
RF00428 Small nucleolar RNA SNORA38 132 398 67.9 Reduced aligment ECs
RF00430 Small nucleolar RNA SNORA54 127 191 69.2 Reduced aligment ECs
RF00432 Small nucleolar RNA SNORA51 133 844 182.5 Reduced aligment ECs
RF00435 Repression of heat shock gene expression (ROSE) element 96 111 49.9 Reduced aligment ECs
RF00436 UnaL2 LINE 3' element 55 100501 1719.0 Reduced aligment ECs
RF00438 Small nucleolar RNA SNORA33 131 398 93.3 Reduced aligment ECs
RF00442 ykkC-yxkD leader 103 741 220.5 Reduced aligment ECs
RF00443 Small nucleolar RNA SNORA27 128 377 79.0 Reduced aligment ECs
RF00445 mir-399 microRNA precursor family 111 490 160.8 Reduced aligment ECs
RF00451 mir-395 microRNA precursor family 98 1549 141.3 Reduced aligment ECs
RF00452 mir-172 microRNA precursor family 115 609 114.0 Reduced aligment ECs
RF00459 Mason-Pfizer monkey virus packaging signal 280 740 183.8 Reduced aligment ECs
RF00476 Small nucleolar RNA snR61/Z1/Z11 85 341 87.3 Reduced aligment ECs
RF00485 Potassium channel RNA editing signal 115 3411 516.7 Reduced aligment ECs
RF00513 Tryptophan operon leader 98 704 53.6 Reduced aligment ECs
RF00515 PyrR binding site 114 1790 288.1 Reduced aligment ECs
RF00519 suhB 78 535 228.6 Reduced aligment ECs
RF00521 SAM riboswitch (alpha-proteobacteria) 80 356 99.8 Reduced aligment ECs
RF00525 Flavivirus DB element 73 6950 40.7 Reduced aligment ECs
RF00548 U11 spliceosomal RNA 135 677 158.6 Reduced aligment ECs
RF00557 Ribosomal protein L10 leader 139 1398 288.6 Reduced aligment ECs
RF00558 Ribosomal protein L20 leader 127 1132 153.1 Reduced aligment ECs
RF00559 Ribosomal protein L21 leader 78 891 61.8 Reduced aligment ECs
RF00560 Small nucleolar RNA SNORA17 133 5155 618.2 Reduced aligment ECs
RF00561 Small nucleolar RNA SNORA40 129 1001 159.0 Reduced aligment ECs
RF00568 Small nucleolar RNA SNORA26 123 586 113.4 Reduced aligment ECs
RF00598 Small nucleolar RNA SNORA76 133 343 89.4 Reduced aligment ECs
RF00601 Small Cajal body specific RNA 20 131 302 70.1 Reduced aligment ECs
RF00604 Small nucleolar RNA SNORD88 92 296 51.1 Reduced aligment ECs
RF00614 Small nucleolar RNA SNORA11 130 719 111.0 Reduced aligment ECs
RF00618 U4atac minor spliceosomal RNA 127 715 124.9 Reduced aligment ECs
RF00619 U6atac minor spliceosomal RNA 127 2585 574.0 Reduced aligment ECs
RF00634 S-adenosyl methionine (SAM) riboswitch, 117 468 79.1 Reduced aligment ECs
RF00638 microRNA MIR159 197 853 159.4 Reduced aligment ECs
RF00640 microRNA MIR167_1 122 750 99.7 Reduced aligment ECs
RF00641 microRNA mir-154 81 1954 66.0 Reduced aligment ECs
RF00643 microRNA MIR171_1 103 568 137.7 Reduced aligment ECs
RF00645 microRNA MIR169_2 118 880 348.2 Reduced aligment ECs
RF00647 microRNA MIR164 118 579 63.9 Reduced aligment ECs
RF00648 microRNA MIR396 133 390 87.2 Reduced aligment ECs
RF00655 microRNA mir-28 87 633 258.4 Reduced aligment ECs
RF00665 microRNA mir-290 82 554 51.2 Reduced aligment ECs
RF00670 microRNA mir-105 82 308 45.5 Reduced aligment ECs
RF00685 microRNA mir-36 104 263 76.1 Reduced aligment ECs
RF00693 microRNA mir-147 71 314 40.6 Reduced aligment ECs
RF00695 microRNA MIR398 110 244 58.2 Reduced aligment ECs
RF00697 microRNA mir-186 94 538 81.2 Reduced aligment ECs
RF00711 microRNA mir-449 91 294 73.0 Reduced aligment ECs
RF00736 microRNA mir-320 83 541 87.7 Reduced aligment ECs
RF00761 microRNA mir-340 98 967 266.6 Reduced aligment ECs
RF00779 microRNA MIR474 89 222 147.7 Reduced aligment ECs
RF00782 microRNA MIR480 127 586 372.9 Reduced aligment ECs
RF00825 microRNA mir-344 96 471 70.7 Reduced aligment ECs
RF00865 microRNA MIR169_5 140 476 188.2 Reduced aligment ECs
RF00872 microRNA mir-652 97 656 175.4 Reduced aligment ECs
RF00875 microRNA mir-692 82 2371 347.5 Reduced aligment ECs
RF00876 microRNA mir-684 89 2250 298.0 Reduced aligment ECs
RF00885 microRNA MIR821 276 2232 158.7 Reduced aligment ECs
RF00906 microRNA MIR1122 115 927 104.8 Reduced aligment ECs
RF00989 microRNA mir-492 117 1793 99.5 Reduced aligment ECs
RF01016 microRNA mir-584 121 408 146.3 Reduced aligment ECs
RF01045 microRNA mir-544 106 1634 147.9 Reduced aligment ECs
RF01051 Cyclic di-GMP-I riboswitch 88 1990 659.7 Reduced aligment ECs
RF01055 Moco (molybdenum cofactor) riboswitch 138 1080 238.8 Reduced aligment ECs
RF01057 S-adenosyl-L-homocysteine riboswitch 78 419 125.5 Reduced aligment ECs
RF01059 microRNA mir-598 97 4886 1276.7 Reduced aligment ECs
RF01063 microRNA mir-324 67 2918 589.8 Reduced aligment ECs
RF01068 mini-ykkC RNA motif 48 932 91.1 Reduced aligment ECs
RF01159 Small nucleolar RNA U18 72 171 48.7 Reduced aligment ECs
RF01185 Small nucleolar RNA snR75 87 221 43.5 Reduced aligment ECs
RF01225 Small nucleolar RNA ACA64 128 334 93.7 Reduced aligment ECs
RF01233 Small nucleolar RNA U109 136 426 81.5 Reduced aligment ECs
RF01394 isrK Hfq binding RNA 78 1476 169.0 Reduced aligment ECs
RF01413 microRNA miR-430 88 2185 77.5 Reduced aligment ECs
RF01417 Retroviral 3'UTR stability element 290 21039 1314.9 Reduced aligment ECs
RF01419 Antisense RNA which regulates isiA expression 188 2410 159.6 Reduced aligment ECs
RF01421 small nucleolar RNA snoR114 88 206 79.5 Reduced aligment ECs
RF01492 Listeria sRNA rli28 184 1124 120.0 Reduced aligment ECs
RF01497 ALIL pseudoknot 118 3080 141.3 Reduced aligment ECs
RF01656 C. elegans sRNA ceN72-3_ceN74-2 70 181 50.8 Reduced aligment ECs
RF01688 Actino-pnp RNA 61 409 36.1 Reduced aligment ECs
RF01690 Bacillaceae-1 RNA 68 408 43.7 Reduced aligment ECs
RF01695 C4 antisense RNA 88 3693 462.2 Reduced aligment ECs
RF01699 Clostridiales-1 RNA 168 873 311.1 Reduced aligment ECs
RF01701 Cyano-1 RNA 70 437 81.4 Reduced aligment ECs
RF01704 Downstream peptide RNA 62 858 96.4 Reduced aligment ECs
RF01705 Flavo-1 RNA 77 959 397.0 Reduced aligment ECs
RF01717 PhotoRC-II RNA 95 568 99.5 Reduced aligment ECs
RF01725 SAM-I/IV variant riboswitch 99 734 201.5 Reduced aligment ECs
RF01726 SAM-II long loop 60 324 54.7 Reduced aligment ECs
RF01727 SAM/SAH riboswitch 50 88 25.8 Reduced aligment ECs
RF01731 TwoAYGGAY RNA 168 701 174.3 Reduced aligment ECs
RF01739 glnA RNA 54 1434 72.8 Reduced aligment ECs
RF01746 mraW RNA 108 342 80.6 Reduced aligment ECs
RF01747 msiK RNA 61 423 67.9 Reduced aligment ECs
RF01749 pan motif 92 400 98.6 Reduced aligment ECs
RF01750 pfl RNA 86 709 254.3 Reduced aligment ECs
RF01754 radC RNA 150 529 111.3 Reduced aligment ECs
RF01761 wcaG RNA 99 164 57.4 Reduced aligment ECs
RF01763 ykkC-III RNA 68 169 81.5 Reduced aligment ECs
RF01764 yjdF RNA 101 610 71.9 Reduced aligment ECs
RF01766 cspA thermoregulator 390 6179 1469.2 Reduced aligment ECs
RF01776 RNA anti-toxin A 90 642 59.7 Reduced aligment ECs
RF01787 drz-agam-1 riboswitch 117 5017 108.6 Reduced aligment ECs
RF01788 drz-agam-2-2 riboswitch 193 740 104.2 Reduced aligment ECs
RF01793 ffh sRNA 54 1092 38.8 Reduced aligment ECs
RF01794 sok antitoxin 157 3129 142.5 Reduced aligment ECs
RF01844 SmY spliceosomal RNA 81 172 69.4 Reduced aligment ECs
RF01847 Plant small nucleolar RNA U3 222 572 152.5 Reduced aligment ECs
RF01849 Alphaproteobacteria transfer-messenger RNA 304 1712 224.9 Reduced aligment ECs
RF01850 Betaproteobacteria transfer-messenger RNA 201 615 137.7 Reduced aligment ECs
RF01853 Mitochondrial DNA control region secondary structure A 107 61513 198.2 Reduced aligment ECs
RF01854 Bacterial large signal recognition particle RNA 258 1662 368.7 Reduced aligment ECs
RF01855 Plant signal recognition particle RNA 306 687 164.4 Reduced aligment ECs
RF01867 caulobacter sRNA CC2171 105 141 68.9 Reduced aligment ECs
RF01942 microRNA mir-1937 120 9592 341.5 Reduced aligment ECs
RF01998 Group II catalytic intron D1-D4-1 85 1726 320.4 Reduced aligment ECs
RF01999 Group II catalytic intron D1-D4-2 119 594 136.3 Reduced aligment ECs
RF02003 Group II catalytic intron D1-D4-4 140 360 93.7 Reduced aligment ECs
RF02004 Group II catalytic intron D1-D4-5 199 555 136.0 Reduced aligment ECs
RF02005 Group II catalytic intron D1-D4-6 234 666 289.0 Reduced aligment ECs
RF02033 HNH endonuclease-associated RNA and ORF (HEARO) RNA 128 458 178.0 Reduced aligment ECs
RF02076 Gammaproteobacterial sRNA STnc100 207 1477 157.1 Reduced aligment ECs
RF02094 mir-1803 microRNA precursor 87 285 198.5 Reduced aligment ECs
RF02096 mir-2973 microRNA precursor 79 769 49.7 Reduced aligment ECs
RF02194 Bacterial antisene RNA HPnc0260 155 792 259.4 Reduced aligment ECs
RF02221 sRNA-Xcc1 88 774 113.5 Reduced aligment ECs
RF02223 Proteobacterial sRNA sX4 148 210 111.4 Reduced aligment ECs
RF02228 Xanthomonas sRNA sX9 77 1935 155.4 Reduced aligment ECs
RF02271 TUC338 181 857 384.9 Reduced aligment ECs
RF02276 Hammerhead ribozyme (type II) 69 156 38.4 Reduced aligment ECs