Mercurial > repos > iuc > tbvcfreport

comparison test-data/vcf_with_no_protein_report.html @ 3:42818629ec4c draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/blob/master/tools/tbvcfreport commit f54e7cfd572498517dde7fe6afab47a20e3fcb17
author iuc
date Fri, 31 May 2024 20:06:49 +0000
parents 4934c0ac6197
children
comparison
equal deleted inserted replaced
2:4934c0ac6197 3:42818629ec4c
28 <tr> 28 <tr>
29 <th scope="col">CHR</th> 29 <th scope="col">CHR</th>
30 <th scope="col">GENE</th> 30 <th scope="col">GENE</th>
31 <th scope="col">LOCUS</th> 31 <th scope="col">LOCUS</th>
32 <th scope="col">PRODUCT</th> 32 <th scope="col">PRODUCT</th>
33 <th scope="col">TYPE</th> 33 <th scope="col">IS_SNV</th>
34 <th scope="col">EFFECT</th> 34 <th scope="col">EFFECT</th>
35 <th scope="col">POS</th> 35 <th scope="col">POS</th>
36 <th scope="col">REF</th> 36 <th scope="col">REF</th>
37 <th scope="col">ALT</th> 37 <th scope="col">ALT</th>
38 <th scope="col">BIOTYPE</th> 38 <th scope="col">BIOTYPE</th>
53 </td> 53 </td>
54 <td> 54 <td>
55 <a href="https://explorer.sanbi.ac.za/search?q=O69720" 55 <a href="https://explorer.sanbi.ac.za/search?q=O69720"
56 target="_blank" rel="noreferrer noopener">O69720</a> 56 target="_blank" rel="noreferrer noopener">O69720</a>
57 </td> 57 </td>
58 <td>snp</td> 58 <td>True</td>
59 <td>missense_variant</td> 59 <td>missense_variant</td>
60 <td> 60 <td>
61 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4200220..4200220&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4200220..4200220" 61 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4200220..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4200220..None"
62 target="_blank" rel="noreferrer noopener">4200220</a> 62 target="_blank" rel="noreferrer noopener">4200220</a>
63 </td> 63 </td>
64 <td>G</td> 64 <td>G</td>
65 <td>A</td> 65 <td>A</td>
66 <td>protein_coding</td> 66 <td>protein_coding</td>
80 </td> 80 </td>
81 <td> 81 <td>
82 <a href="https://explorer.sanbi.ac.za/search?q=O69722" 82 <a href="https://explorer.sanbi.ac.za/search?q=O69722"
83 target="_blank" rel="noreferrer noopener">O69722</a> 83 target="_blank" rel="noreferrer noopener">O69722</a>
84 </td> 84 </td>
85 <td>snp</td> 85 <td>True</td>
86 <td>synonymous_variant</td> 86 <td>synonymous_variant</td>
87 <td> 87 <td>
88 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4202383..4202383&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4202383..4202383" 88 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4202383..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4202383..None"
89 target="_blank" rel="noreferrer noopener">4202383</a> 89 target="_blank" rel="noreferrer noopener">4202383</a>
90 </td> 90 </td>
91 <td>C</td> 91 <td>C</td>
92 <td>A</td> 92 <td>A</td>
93 <td>protein_coding</td> 93 <td>protein_coding</td>
112 </td> 112 </td>
113 <td> 113 <td>
114 <a href="https://explorer.sanbi.ac.za/search?q=O69725" 114 <a href="https://explorer.sanbi.ac.za/search?q=O69725"
115 target="_blank" rel="noreferrer noopener">O69725</a> 115 target="_blank" rel="noreferrer noopener">O69725</a>
116 </td> 116 </td>
117 <td>snp</td> 117 <td>True</td>
118 <td>missense_variant</td> 118 <td>missense_variant</td>
119 <td> 119 <td>
120 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4205120..4205120&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4205120..4205120" 120 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4205120..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4205120..None"
121 target="_blank" rel="noreferrer noopener">4205120</a> 121 target="_blank" rel="noreferrer noopener">4205120</a>
122 </td> 122 </td>
123 <td>G</td> 123 <td>G</td>
124 <td>A</td> 124 <td>A</td>
125 <td>protein_coding</td> 125 <td>protein_coding</td>
144 </td> 144 </td>
145 <td> 145 <td>
146 <a href="https://explorer.sanbi.ac.za/search?q=O69729" 146 <a href="https://explorer.sanbi.ac.za/search?q=O69729"
147 target="_blank" rel="noreferrer noopener">O69729</a> 147 target="_blank" rel="noreferrer noopener">O69729</a>
148 </td> 148 </td>
149 <td>snp</td> 149 <td>True</td>
150 <td>missense_variant</td> 150 <td>missense_variant</td>
151 <td> 151 <td>
152 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4210876..4210876&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4210876..4210876" 152 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4210876..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4210876..None"
153 target="_blank" rel="noreferrer noopener">4210876</a> 153 target="_blank" rel="noreferrer noopener">4210876</a>
154 </td> 154 </td>
155 <td>C</td> 155 <td>C</td>
156 <td>T</td> 156 <td>T</td>
157 <td>protein_coding</td> 157 <td>protein_coding</td>
171 </td> 171 </td>
172 <td> 172 <td>
173 <a href="https://explorer.sanbi.ac.za/search?q=P72036" 173 <a href="https://explorer.sanbi.ac.za/search?q=P72036"
174 target="_blank" rel="noreferrer noopener">P72036</a> 174 target="_blank" rel="noreferrer noopener">P72036</a>
175 </td> 175 </td>
176 <td>snp</td> 176 <td>True</td>
177 <td>missense_variant</td> 177 <td>missense_variant</td>
178 <td> 178 <td>
179 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4214747..4214747&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4214747..4214747" 179 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4214747..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4214747..None"
180 target="_blank" rel="noreferrer noopener">4214747</a> 180 target="_blank" rel="noreferrer noopener">4214747</a>
181 </td> 181 </td>
182 <td>C</td> 182 <td>C</td>
183 <td>T</td> 183 <td>T</td>
184 <td>protein_coding</td> 184 <td>protein_coding</td>
198 </td> 198 </td>
199 <td> 199 <td>
200 <a href="https://explorer.sanbi.ac.za/search?q=P72037" 200 <a href="https://explorer.sanbi.ac.za/search?q=P72037"
201 target="_blank" rel="noreferrer noopener">P72037</a> 201 target="_blank" rel="noreferrer noopener">P72037</a>
202 </td> 202 </td>
203 <td>snp</td> 203 <td>True</td>
204 <td>missense_variant</td> 204 <td>missense_variant</td>
205 <td> 205 <td>
206 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4215484..4215484&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4215484..4215484" 206 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4215484..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4215484..None"
207 target="_blank" rel="noreferrer noopener">4215484</a> 207 target="_blank" rel="noreferrer noopener">4215484</a>
208 </td> 208 </td>
209 <td>C</td> 209 <td>C</td>
210 <td>G</td> 210 <td>G</td>
211 <td>protein_coding</td> 211 <td>protein_coding</td>
225 </td> 225 </td>
226 <td> 226 <td>
227 <a href="https://explorer.sanbi.ac.za/search?q=P9WML5" 227 <a href="https://explorer.sanbi.ac.za/search?q=P9WML5"
228 target="_blank" rel="noreferrer noopener">P9WML5</a> 228 target="_blank" rel="noreferrer noopener">P9WML5</a>
229 </td> 229 </td>
230 <td>snp</td> 230 <td>True</td>
231 <td>missense_variant</td> 231 <td>missense_variant</td>
232 <td> 232 <td>
233 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4217557..4217557&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4217557..4217557" 233 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4217557..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4217557..None"
234 target="_blank" rel="noreferrer noopener">4217557</a> 234 target="_blank" rel="noreferrer noopener">4217557</a>
235 </td> 235 </td>
236 <td>G</td> 236 <td>G</td>
237 <td>A</td> 237 <td>A</td>
238 <td>protein_coding</td> 238 <td>protein_coding</td>
275 </td> 275 </td>
276 <td> 276 <td>
277 <a href="https://explorer.sanbi.ac.za/search?q=P72043" 277 <a href="https://explorer.sanbi.ac.za/search?q=P72043"
278 target="_blank" rel="noreferrer noopener">P72043</a> 278 target="_blank" rel="noreferrer noopener">P72043</a>
279 </td> 279 </td>
280 <td>snp</td> 280 <td>True</td>
281 <td>missense_variant</td> 281 <td>missense_variant</td>
282 <td> 282 <td>
283 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4223172..4223172&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4223172..4223172" 283 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4223172..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4223172..None"
284 target="_blank" rel="noreferrer noopener">4223172</a> 284 target="_blank" rel="noreferrer noopener">4223172</a>
285 </td> 285 </td>
286 <td>C</td> 286 <td>C</td>
287 <td>T</td> 287 <td>T</td>
288 <td>protein_coding</td> 288 <td>protein_coding</td>
302 </td> 302 </td>
303 <td> 303 <td>
304 <a href="https://explorer.sanbi.ac.za/search?q=P9WKX1" 304 <a href="https://explorer.sanbi.ac.za/search?q=P9WKX1"
305 target="_blank" rel="noreferrer noopener">P9WKX1</a> 305 target="_blank" rel="noreferrer noopener">P9WKX1</a>
306 </td> 306 </td>
307 <td>snp</td> 307 <td>True</td>
308 <td>synonymous_variant</td> 308 <td>synonymous_variant</td>
309 <td> 309 <td>
310 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4232327..4232327&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4232327..4232327" 310 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4232327..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4232327..None"
311 target="_blank" rel="noreferrer noopener">4232327</a> 311 target="_blank" rel="noreferrer noopener">4232327</a>
312 </td> 312 </td>
313 <td>G</td> 313 <td>G</td>
314 <td>A</td> 314 <td>A</td>
315 <td>protein_coding</td> 315 <td>protein_coding</td>
329 </td> 329 </td>
330 <td> 330 <td>
331 <a href="https://explorer.sanbi.ac.za/search?q=P9WN03" 331 <a href="https://explorer.sanbi.ac.za/search?q=P9WN03"
332 target="_blank" rel="noreferrer noopener">P9WN03</a> 332 target="_blank" rel="noreferrer noopener">P9WN03</a>
333 </td> 333 </td>
334 <td>snp</td> 334 <td>True</td>
335 <td>synonymous_variant</td> 335 <td>synonymous_variant</td>
336 <td> 336 <td>
337 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4238963..4238963&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4238963..4238963" 337 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4238963..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4238963..None"
338 target="_blank" rel="noreferrer noopener">4238963</a> 338 target="_blank" rel="noreferrer noopener">4238963</a>
339 </td> 339 </td>
340 <td>C</td> 340 <td>C</td>
341 <td>T</td> 341 <td>T</td>
342 <td>protein_coding</td> 342 <td>protein_coding</td>
361 </td> 361 </td>
362 <td> 362 <td>
363 <a href="https://explorer.sanbi.ac.za/search?q=P9WN03" 363 <a href="https://explorer.sanbi.ac.za/search?q=P9WN03"
364 target="_blank" rel="noreferrer noopener">P9WN03</a> 364 target="_blank" rel="noreferrer noopener">P9WN03</a>
365 </td> 365 </td>
366 <td>snp</td> 366 <td>True</td>
367 <td>missense_variant</td> 367 <td>missense_variant</td>
368 <td> 368 <td>
369 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4239274..4239274&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4239274..4239274" 369 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4239274..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4239274..None"
370 target="_blank" rel="noreferrer noopener">4239274</a> 370 target="_blank" rel="noreferrer noopener">4239274</a>
371 </td> 371 </td>
372 <td>C</td> 372 <td>C</td>
373 <td>G</td> 373 <td>G</td>
374 <td>protein_coding</td> 374 <td>protein_coding</td>
393 </td> 393 </td>
394 <td> 394 <td>
395 <a href="https://explorer.sanbi.ac.za/search?q=P9WNL5" 395 <a href="https://explorer.sanbi.ac.za/search?q=P9WNL5"
396 target="_blank" rel="noreferrer noopener">P9WNL5</a> 396 target="_blank" rel="noreferrer noopener">P9WNL5</a>
397 </td> 397 </td>
398 <td>snp</td> 398 <td>True</td>
399 <td>missense_variant</td> 399 <td>missense_variant</td>
400 <td> 400 <td>
401 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4240671..4240671&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4240671..4240671" 401 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4240671..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4240671..None"
402 target="_blank" rel="noreferrer noopener">4240671</a> 402 target="_blank" rel="noreferrer noopener">4240671</a>
403 </td> 403 </td>
404 <td>T</td> 404 <td>T</td>
405 <td>C</td> 405 <td>C</td>
406 <td>protein_coding</td> 406 <td>protein_coding</td>
425 </td> 425 </td>
426 <td> 426 <td>
427 <a href="https://explorer.sanbi.ac.za/search?q=P9WNL7" 427 <a href="https://explorer.sanbi.ac.za/search?q=P9WNL7"
428 target="_blank" rel="noreferrer noopener">P9WNL7</a> 428 target="_blank" rel="noreferrer noopener">P9WNL7</a>
429 </td> 429 </td>
430 <td>snp</td> 430 <td>True</td>
431 <td>missense_variant</td> 431 <td>missense_variant</td>
432 <td> 432 <td>
433 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247429..4247429&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247429..4247429" 433 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247429..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247429..None"
434 target="_blank" rel="noreferrer noopener">4247429</a> 434 target="_blank" rel="noreferrer noopener">4247429</a>
435 </td> 435 </td>
436 <td>A</td> 436 <td>A</td>
437 <td>G</td> 437 <td>G</td>
438 <td>protein_coding</td> 438 <td>protein_coding</td>
457 </td> 457 </td>
458 <td> 458 <td>
459 <a href="https://explorer.sanbi.ac.za/search?q=P9WNL7" 459 <a href="https://explorer.sanbi.ac.za/search?q=P9WNL7"
460 target="_blank" rel="noreferrer noopener">P9WNL7</a> 460 target="_blank" rel="noreferrer noopener">P9WNL7</a>
461 </td> 461 </td>
462 <td>snp</td> 462 <td>True</td>
463 <td>missense_variant</td> 463 <td>missense_variant</td>
464 <td> 464 <td>
465 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247646..4247646&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247646..4247646" 465 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4247646..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4247646..None"
466 target="_blank" rel="noreferrer noopener">4247646</a> 466 target="_blank" rel="noreferrer noopener">4247646</a>
467 </td> 467 </td>
468 <td>C</td> 468 <td>C</td>
469 <td>A</td> 469 <td>A</td>
470 <td>protein_coding</td> 470 <td>protein_coding</td>
489 </td> 489 </td>
490 <td> 490 <td>
491 <a href="https://explorer.sanbi.ac.za/search?q=O53577" 491 <a href="https://explorer.sanbi.ac.za/search?q=O53577"
492 target="_blank" rel="noreferrer noopener">O53577</a> 492 target="_blank" rel="noreferrer noopener">O53577</a>
493 </td> 493 </td>
494 <td>snp</td> 494 <td>True</td>
495 <td>synonymous_variant</td> 495 <td>synonymous_variant</td>
496 <td> 496 <td>
497 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4251297..4251297&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4251297..4251297" 497 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4251297..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4251297..None"
498 target="_blank" rel="noreferrer noopener">4251297</a> 498 target="_blank" rel="noreferrer noopener">4251297</a>
499 </td> 499 </td>
500 <td>C</td> 500 <td>C</td>
501 <td>G</td> 501 <td>G</td>
502 <td>protein_coding</td> 502 <td>protein_coding</td>
515 rel="noreferrer noopener">Rv3798</a> 515 rel="noreferrer noopener">Rv3798</a>
516 </td> 516 </td>
517 <td> 517 <td>
518 <p>NA</p> 518 <p>NA</p>
519 </td> 519 </td>
520 <td>snp</td> 520 <td>True</td>
521 <td>missense_variant</td> 521 <td>missense_variant</td>
522 <td> 522 <td>
523 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254290..4254290&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254290..4254290" 523 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254290..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254290..None"
524 target="_blank" rel="noreferrer noopener">4254290</a> 524 target="_blank" rel="noreferrer noopener">4254290</a>
525 </td> 525 </td>
526 <td>T</td> 526 <td>T</td>
527 <td>G</td> 527 <td>G</td>
528 <td>protein_coding</td> 528 <td>protein_coding</td>
542 </td> 542 </td>
543 <td> 543 <td>
544 <a href="https://explorer.sanbi.ac.za/search?q=O53578" 544 <a href="https://explorer.sanbi.ac.za/search?q=O53578"
545 target="_blank" rel="noreferrer noopener">O53578</a> 545 target="_blank" rel="noreferrer noopener">O53578</a>
546 </td> 546 </td>
547 <td>snp</td> 547 <td>True</td>
548 <td>missense_variant</td> 548 <td>missense_variant</td>
549 <td> 549 <td>
550 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254478..4254478&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254478..4254478" 550 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4254478..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4254478..None"
551 target="_blank" rel="noreferrer noopener">4254478</a> 551 target="_blank" rel="noreferrer noopener">4254478</a>
552 </td> 552 </td>
553 <td>G</td> 553 <td>G</td>
554 <td>A</td> 554 <td>A</td>
555 <td>protein_coding</td> 555 <td>protein_coding</td>
569 </td> 569 </td>
570 <td> 570 <td>
571 <a href="https://explorer.sanbi.ac.za/search?q=O53580" 571 <a href="https://explorer.sanbi.ac.za/search?q=O53580"
572 target="_blank" rel="noreferrer noopener">O53580</a> 572 target="_blank" rel="noreferrer noopener">O53580</a>
573 </td> 573 </td>
574 <td>snp</td> 574 <td>True</td>
575 <td>missense_variant</td> 575 <td>missense_variant</td>
576 <td> 576 <td>
577 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4261499..4261499&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4261499..4261499" 577 <a href="https://explorer.sanbi.ac.za/jbrowse/?loc=NC_000962.3%3A4261499..None&tracks=DNA%2CGenes&highlight=NC_000962.3%3A4261499..None"
578 target="_blank" rel="noreferrer noopener">4261499</a> 578 target="_blank" rel="noreferrer noopener">4261499</a>
579 </td> 579 </td>
580 <td>A</td> 580 <td>A</td>
581 <td>G</td> 581 <td>G</td>
582 <td>protein_coding</td> 582 <td>protein_coding</td>