TransMembrane prediction using Hidden Markov Models for Rv1266c




Residue number
and Amino Acid
Probabilities
InsideMembraneOutside
1 M0.671830.000000.32817
2 S0.671830.000000.32817
3 D0.671830.000000.32817
4 A0.671830.000000.32816
5 Q0.671830.000000.32816
6 D0.671830.000000.32816
7 S0.671830.000000.32816
8 R0.671830.000000.32816
9 V0.671830.000010.32816
10 G0.671830.000010.32816
11 S0.671830.000010.32816
12 M0.671830.000010.32816
13 F0.671830.000010.32816
14 G0.671830.000010.32816
15 P0.671830.000010.32816
16 Y0.671830.000010.32816
17 H0.671830.000010.32816
18 L0.671830.000010.32816
19 K0.671830.000010.32816
20 R0.671830.000010.32816
21 L0.671830.000010.32816
22 L0.671830.000010.32816
23 G0.671830.000010.32816
24 R0.671830.000010.32816
25 G0.671830.000010.32816
26 G0.671830.000010.32816
27 M0.671830.000010.32816
28 G0.671830.000010.32816
29 E0.671830.000010.32816
30 V0.671830.000010.32816
31 Y0.671830.000010.32816
32 E0.671830.000010.32816
33 A0.671830.000010.32816
34 E0.671830.000010.32816
35 H0.671830.000010.32816
36 T0.671830.000010.32815
37 V0.671830.000010.32815
38 K0.671830.000010.32816
39 E0.671830.000010.32816
40 W0.671830.000020.32814
41 T0.671830.000020.32814
42 V0.671830.000020.32814
43 A0.671840.000020.32814
44 V0.671840.000010.32815
45 K0.671840.000010.32815
46 L0.671840.000010.32815
47 M0.671840.000010.32815
48 T0.671840.000010.32815
49 A0.671840.000010.32815
50 E0.671840.000010.32815
51 F0.671840.000010.32815
52 S0.671840.000010.32815
53 K0.671840.000010.32815
54 D0.671840.000010.32815
55 P0.671840.000010.32815
56 V0.671840.000010.32815
57 F0.671840.000010.32815
58 R0.671850.000000.32815
59 E0.671850.000000.32815
60 R0.671850.000000.32815
61 M0.671850.000000.32815
62 K0.671850.000000.32815
63 R0.671850.000000.32815
64 E0.671850.000000.32815
65 A0.671850.000000.32815
66 R0.671850.000000.32815
67 I0.671850.000000.32815
68 A0.671850.000000.32815
69 G0.671850.000000.32815
70 R0.671850.000000.32815
71 L0.671850.000000.32815
72 Q0.671850.000000.32815
73 E0.671850.000000.32815
74 P0.671850.000000.32815
75 H0.671850.000000.32815
76 V0.671850.000000.32815
77 V0.671850.000000.32815
78 P0.671850.000000.32815
79 I0.671850.000000.32815
80 H0.671850.000000.32815
81 D0.671850.000000.32815
82 Y0.671850.000000.32815
83 G0.671850.000000.32815
84 E0.671850.000000.32815
85 V0.671850.000000.32815
86 D0.671850.000000.32815
87 G0.671850.000000.32815
88 Q0.671850.000000.32815
89 M0.671850.000000.32815
90 F0.671850.000000.32815
91 L0.671850.000000.32815
92 E0.671850.000000.32815
93 M0.671850.000000.32815
94 R0.671850.000000.32815
95 L0.671850.000000.32815
96 V0.671850.000000.32815
97 E0.671850.000000.32815
98 G0.671850.000000.32815
99 T0.671850.000000.32815
100 D0.671850.000000.32815
101 L0.671850.000000.32815
102 D0.671850.000000.32815
103 S0.671850.000000.32815
104 V0.671850.000000.32815
105 L0.671850.000000.32815
106 K0.671850.000000.32815
107 R0.671850.000010.32814
108 F0.671840.000050.32811
109 G0.671840.000060.32809
110 P0.671840.000080.32807
111 L0.671840.000210.32795
112 T0.671840.000260.3279
113 P0.671840.000320.32784
114 P0.671840.000380.32779
115 R0.671830.000450.32772
116 A0.671820.000640.32754
117 V0.671820.000690.32749
118 A0.671820.000730.32745
119 I0.671820.000740.32745
120 I0.671820.000740.32745
121 T0.671820.000740.32745
122 Q0.671820.000740.32745
123 I0.671820.000740.32745
124 A0.671820.000730.32745
125 S0.671820.000730.32745
126 A0.671820.000730.32745
127 L0.671830.000720.32745
128 D0.671870.000680.32745
129 A0.671880.000660.32746
130 A0.671920.000630.32746
131 H0.671990.000550.32746
132 A0.672070.000470.32746
133 D0.672150.000390.32747
134 G0.672180.000360.32747
135 V0.672210.000330.32747
136 M0.672430.000100.32747
137 H0.672470.000050.32748
138 R0.672500.000020.32748
139 D0.672520.000000.32748
140 V0.672520.000000.32748
141 K0.672520.000000.32748
142 P0.672520.000000.32748
143 Q0.672520.000000.32748
144 N0.672520.000000.32748
145 I0.672520.000020.32746
146 L0.672520.000020.32746
147 I0.672520.000020.32746
148 T0.672520.000020.32746
149 R0.672520.000020.32746
150 D0.672520.000020.32746
151 D0.672520.000020.32746
152 F0.672520.000030.32745
153 A0.672520.000030.32745
154 Y0.672520.000030.32745
155 L0.672520.000030.32745
156 V0.672520.000030.32745
157 D0.672520.000030.32745
158 F0.672520.000030.32745
159 G0.672520.000030.32745
160 I0.672520.000030.32745
161 A0.672520.000030.32745
162 S0.672520.000030.32745
163 A0.672520.000030.32745
164 T0.672530.000020.32745
165 T0.672530.000020.32745
166 D0.672530.000010.32745
167 E0.672540.000010.32745
168 K0.672540.000010.32745
169 L0.672540.000010.32745
170 T0.672540.000010.32745
171 Q0.672540.000010.32745
172 L0.672540.000010.32745
173 G0.672540.000010.32745
174 T0.672540.000010.32745
175 A0.672540.000010.32745
176 V0.672540.000010.32745
177 G0.672540.000010.32745
178 T0.672540.000000.32745
179 W0.672540.000000.32745
180 K0.672550.000000.32745
181 Y0.672550.000000.32745
182 M0.672550.000000.32745
183 A0.672550.000000.32745
184 P0.672550.000000.32745
185 E0.672550.000000.32745
186 R0.672550.000000.32745
187 F0.672550.000000.32745
188 S0.672550.000000.32745
189 N0.672550.000000.32745
190 D0.672550.000000.32745
191 E0.672550.000010.32744
192 V0.672550.000060.3274
193 T0.672540.000070.32739
194 Y0.672540.000080.32738
195 R0.672540.000080.32738
196 A0.672540.000100.32736
197 D0.672540.000110.32736
198 I0.672530.000130.32734
199 Y0.672530.000130.32734
200 A0.672530.000130.32734
201 L0.672530.000130.32734
202 A0.672530.000130.32734
203 C0.672530.000130.32734
204 V0.672530.000130.32734
205 L0.672530.000130.32734
206 H0.672530.000130.32734
207 E0.672530.000130.32734
208 C0.672530.000130.32734
209 L0.672530.000130.32734
210 T0.672560.000100.32734
211 G0.672570.000090.32734
212 A0.672580.000080.32734
213 P0.672580.000080.32734
214 P0.672600.000060.32734
215 Y0.672610.000050.32734
216 R0.672630.000020.32735
217 A0.672640.000010.32735
218 D0.672640.000010.32735
219 S0.672640.000010.32735
220 A0.672640.000010.32734
221 G0.672640.000010.32734
222 T0.672640.000010.32734
223 L0.672640.000010.32734
224 V0.672640.000010.32734
225 S0.672640.000010.32734
226 S0.672640.000010.32734
227 H0.672640.000010.32734
228 L0.672640.000010.32734
229 M0.672640.000010.32734
230 G0.672640.000020.32734
231 P0.672640.000020.32734
232 I0.672640.000020.32733
233 P0.672640.000020.32733
234 Q0.672640.000020.32733
235 P0.672640.000030.32733
236 S0.672640.000040.32731
237 A0.672640.000060.3273
238 I0.672640.000060.32729
239 R0.672650.000060.32729
240 P0.672650.000060.32729
241 G0.672650.000060.32729
242 I0.672650.000060.32729
243 P0.672650.000050.32729
244 K0.672660.000050.32729
245 A0.672660.000050.32729
246 F0.672660.000050.32729
247 D0.672660.000050.32729
248 A0.672660.000050.32729
249 V0.672660.000050.32729
250 V0.672660.000050.32729
251 A0.672660.000050.32729
252 R0.672660.000040.32729
253 G0.672660.000040.32729
254 M0.672670.000030.32729
255 A0.672680.000020.32729
256 K0.672700.000000.32729
257 K0.672700.000000.32729
258 P0.672700.000000.32729
259 E0.672700.000000.32729
260 D0.672700.000000.32729
261 R0.672700.000000.32729
262 Y0.672700.000000.32729
263 A0.672700.000000.32729
264 S0.672700.000000.32729
265 A0.672700.000000.32729
266 G0.672700.000000.32729
267 D0.672700.000000.32729
268 L0.672700.000000.32729
269 A0.672700.000000.32729
270 L0.672700.000000.32729
271 A0.672700.000000.32729
272 A0.672700.000000.32729
273 H0.672700.000000.32729
274 E0.672700.000000.32729
275 A0.672700.000000.32729
276 L0.672700.000000.32729
277 S0.672700.000000.32729
278 D0.672700.000000.32729
279 P0.672700.000000.32729
280 D0.672710.000000.32729
281 Q0.672710.000000.32729
282 D0.672710.000000.32729
283 H0.672710.000000.32729
284 A0.672710.000000.32729
285 A0.672710.000000.32729
286 D0.672710.000000.32729
287 I0.672710.000000.32729
288 L0.672710.000000.32729
289 R0.672710.000000.32729
290 R0.672710.000000.32729
291 S0.672710.000000.32729
292 Q0.672710.000000.32729
293 E0.672710.000000.32729
294 S0.672710.000000.32729
295 T0.672710.000000.32729
296 L0.672710.000000.32729
297 P0.672710.000000.32729
298 A0.672710.000000.32729
299 P0.672710.000000.32729
300 P0.672710.000000.32729
301 K0.672710.000000.32729
302 P0.672710.000000.32729
303 V0.672710.000000.32729
304 P0.672710.000000.32729
305 P0.672710.000000.32729
306 P0.672710.000000.32729
307 T0.672710.000000.32729
308 M0.672710.000000.32729
309 P0.672710.000000.32729
310 A0.672710.000000.32729
311 T0.672710.000000.32729
312 A0.672710.000000.32729
313 M0.672710.000000.32729
314 A0.672710.000000.32729
315 P0.672710.000000.32729
316 R0.672710.000000.32729
317 Q0.672710.000000.32729
318 P0.672710.000000.32729
319 P0.672710.000000.32729
320 A0.672710.000000.32729
321 P0.672710.000000.32729
322 P0.672710.000000.32729
323 V0.672710.000000.32729
324 T0.672710.000000.32729
325 P0.672710.000000.32729
326 P0.672710.000000.32729
327 G0.672710.000000.32729
328 V0.672710.000000.32729
329 Q0.672710.000000.32729
330 P0.672710.000000.32729
331 A0.672710.000000.32729
332 P0.672710.000000.32729
333 K0.672710.000000.32729
334 P0.672710.000000.32729
335 S0.672710.000000.32729
336 Y0.672710.000000.32729
337 T0.672710.000000.32729
338 P0.672710.000000.32729
339 P0.672710.000000.32729
340 A0.672710.000000.32729
341 Q0.672710.000000.32729
342 P0.672710.000000.32729
343 G0.672710.000000.32729
344 P0.672710.000000.32729
345 A0.672710.000000.32729
346 G0.672710.000000.32729
347 Q0.672710.000000.32729
348 R0.672710.000000.32729
349 P0.672710.000000.32729
350 G0.672710.000000.32729
351 P0.672710.000000.32729
352 T0.672710.000000.32729
353 G0.672710.000000.32729
354 Q0.672710.000000.32729
355 P0.672710.000000.32729
356 S0.672710.000000.32729
357 W0.672700.000000.32729
358 A0.672700.000000.32729
359 P0.672700.000000.32729
360 N0.672700.000000.32729
361 S0.672700.000000.32729
362 G0.672700.000000.32729
363 P0.672700.000000.32729
364 M0.672700.000000.32729
365 P0.672700.000000.32729
366 A0.672700.000000.32729
367 S0.672700.000000.32729
368 G0.672700.000000.32729
369 P0.672700.000000.32729
370 T0.672700.000000.32729
371 P0.672700.000010.32729
372 T0.672700.000010.32728
373 P0.672700.000030.32726
374 Q0.672700.000050.32724
375 Y0.672700.000070.32723
376 Y0.672700.000070.32722
377 Q0.672700.000070.32722
378 G0.672700.000070.32722
379 G0.672700.000070.32722
380 G0.672700.000080.32722
381 W0.672700.000080.32722
382 G0.672700.000080.32722
383 A0.672700.000080.32722
384 P0.672700.000070.32722
385 P0.672700.000070.32722
386 S0.672700.000070.32722
387 G0.672700.000070.32722
388 G0.672700.000070.32722
389 P0.672700.000070.32722
390 S0.672710.000070.32722
391 P0.672710.000070.32722
392 W0.672720.000060.32722
393 A0.672750.000030.32722
394 Q0.672770.000010.32722
395 T0.672770.000010.32722
396 P0.672770.000000.32722
397 R0.672780.000000.32722
398 K0.672770.000030.3272
399 T0.672610.001060.32632
400 N0.670970.004970.32406
401 P0.656000.034700.3093
402 W0.527470.229580.24295
403 P0.454390.337290.20832
404 L0.029350.917680.05297
405 V0.008990.964920.02609
406 A0.006300.976390.01731
407 G0.001130.987370.01149
408 A0.000340.989930.00974
409 A0.000050.990810.00914
410 A0.000020.990900.00909
411 V0.000010.990920.00907
412 V0.000010.990920.00907
413 L0.000010.990920.00907
414 V0.000010.990920.00907
415 L0.000010.990920.00907
416 V0.000010.990920.00907
417 L0.000010.990920.00907
418 G0.000040.990880.00908
419 A0.000120.990780.0091
420 I0.000490.990260.00925
421 G0.001270.988920.0098
422 I0.003180.985840.01098
423 W0.008100.977690.01421
424 I0.027150.936730.03611
425 A0.095240.743270.16148
426 I0.141320.615530.24315
427 R0.304070.027160.66877
428 P0.317160.001510.68133
429 K0.318110.000070.68183
430 P0.318130.000030.68184
431 V0.318140.000020.68184
432 Q0.318160.000000.68184
433 P0.318160.000000.68185
434 P0.318160.000000.68185
435 Q0.318160.000000.68185
436 P0.318160.000000.68185
437 V0.318150.000010.68184
438 A0.318150.000010.68184
439 E0.318150.000020.68184
440 E0.318150.000020.68184
441 R0.318140.000060.6818
442 L0.318110.000100.68179
443 S0.318100.000110.68179
444 A0.318080.000140.68179
445 L0.318060.000150.68179
446 L0.318060.000160.68179
447 L0.318060.000160.68179
448 N0.318060.000160.68179
449 S0.318060.000160.68179
450 S0.318060.000160.68179
451 E0.318060.000160.68179
452 V0.318060.000160.68179
453 N0.318060.000160.68179
454 A0.318060.000160.68179
455 V0.318060.000160.68179
456 M0.318060.000160.68179
457 G0.318060.000150.68179
458 S0.318060.000150.68179
459 S0.318070.000140.68179
460 S0.318080.000120.6818
461 M0.318100.000090.68182
462 Q0.318110.000050.68184
463 P0.318110.000030.68186
464 G0.318120.000020.68187
465 K0.318120.000000.68188
466 P0.318120.000000.68188
467 I0.318120.000000.68188
468 T0.318120.000000.68188
469 S0.318120.000000.68188
470 M0.318120.000000.68188
471 D0.318120.000000.68188
472 S0.318120.000000.68188
473 S0.318120.000000.68188
474 P0.318120.000000.68188
475 V0.318120.000000.68188
476 T0.318120.000000.68188
477 V0.318120.000000.68188
478 S0.318120.000000.68188
479 L0.318120.000000.68188
480 P0.318120.000000.68188
481 D0.318120.000000.68188
482 C0.318120.000000.68188
483 Q0.318120.000010.68187
484 G0.318110.000030.68185
485 A0.318110.000050.68184
486 L0.318110.000060.68182
487 Y0.318110.000070.68181
488 T0.318110.000080.68181
489 S0.318110.000090.6818
490 Q0.318110.000090.68179
491 D0.318110.000100.68179
492 P0.318100.000130.68177
493 V0.318100.000160.68174
494 Y0.318100.000170.68173
495 A0.318100.000170.68173
496 G0.318100.000170.68173
497 T0.318100.000170.68173
498 G0.318100.000170.68173
499 Y0.318100.000170.68173
500 T0.318100.000170.68173
501 A0.318100.000170.68173
502 I0.318100.000170.68173
503 N0.318100.000170.68173
504 G0.318100.000170.68173
505 L0.318100.000170.68173
506 I0.318110.000160.68173
507 S0.318140.000120.68174
508 S0.318190.000070.68174
509 E0.318210.000050.68174
510 P0.318210.000040.68174
511 G0.318220.000030.68174
512 D0.318240.000000.68176
513 N0.318250.000000.68176
514 Y0.318250.000000.68176
515 E0.318250.000000.68175
516 H0.318250.000010.68175
517 W0.318250.000020.68174
518 V0.318250.000020.68174
519 N0.318250.000020.68174
520 Q0.318250.000020.68174
521 A0.318250.000020.68174
522 V0.318250.000020.68174
523 V0.318250.000020.68174
524 A0.318250.000020.68174
525 F0.318250.000020.68174
526 P0.318250.000020.68174
527 T0.318250.000020.68174
528 A0.318250.000020.68174
529 D0.318250.000020.68174
530 K0.318250.000020.68174
531 A0.318250.000020.68174
532 R0.318250.000020.68174
533 A0.318250.000020.68174
534 F0.318250.000020.68174
535 V0.318250.000010.68174
536 Q0.318260.000000.68174
537 T0.318260.000000.68174
538 S0.318260.000000.68174
539 A0.318260.000000.68174
540 D0.318260.000000.68174
541 K0.318260.000000.68174
542 W0.318260.000000.68174
543 K0.318260.000000.68174
544 N0.318260.000000.68174
545 C0.318260.000000.68174
546 A0.318260.000000.68174
547 G0.318260.000000.68174
548 K0.318260.000000.68174
549 T0.318260.000000.68174
550 V0.318260.000000.68174
551 T0.318260.000000.68174
552 V0.318260.000000.68174
553 T0.318260.000000.68174
554 N0.318260.000000.68174
555 K0.318260.000000.68174
556 A0.318260.000000.68174
557 K0.318260.000000.68174
558 T0.318260.000000.68174
559 Y0.318260.000000.68174
560 R0.318260.000000.68174
561 W0.318260.000000.68174
562 T0.318260.000000.68174
563 F0.318260.000000.68174
564 A0.318260.000000.68174
565 D0.318260.000000.68174
566 V0.318260.000000.68174
567 K0.318260.000000.68174
568 G0.318260.000000.68174
569 S0.318260.000000.68174
570 P0.318260.000000.68174
571 P0.318260.000000.68174
572 T0.318260.000000.68174
573 I0.318260.000000.68174
574 T0.318260.000000.68174
575 V0.318260.000000.68174
576 I0.318260.000000.68174
577 D0.318260.000000.68174
578 T0.318260.000000.68174
579 Q0.318260.000000.68174
580 E0.318260.000000.68174
581 G0.318260.000000.68174
582 A0.318260.000000.68174
583 E0.318260.000000.68174
584 G0.318260.000000.68174
585 W0.318260.000000.68174
586 E0.318260.000000.68174
587 C0.318260.000000.68174
588 Q0.318260.000000.68174
589 R0.318260.000000.68174
590 A0.318260.000010.68173
591 M0.318260.000010.68173
592 S0.318250.000020.68173
593 V0.318240.000030.68173
594 A0.318230.000040.68173
595 N0.318230.000040.68173
596 N0.318230.000040.68173
597 V0.318230.000040.68173
598 V0.318220.000050.68173
599 V0.318220.000050.68173
600 D0.318220.000050.68173
601 V0.318220.000050.68173
602 N0.318220.000050.68173
603 A0.318220.000050.68173
604 C0.318220.000050.68173
605 G0.318220.000050.68173
606 Y0.318220.000050.68173
607 R0.318220.000050.68173
608 I0.318220.000050.68173
609 T0.318230.000040.68173
610 N0.318230.000030.68174
611 Q0.318230.000020.68175
612 A0.318230.000020.68175
613 G0.318230.000020.68175
614 Q0.318230.000020.68175
615 I0.318230.000020.68175
616 A0.318230.000010.68176
617 A0.318230.000010.68176
618 K0.318230.000000.68177
619 I0.318230.000000.68177
620 V0.318230.000000.68177
621 D0.318230.000000.68177
622 K0.318230.000000.68177
623 V0.318230.000000.68177
624 N0.318230.000000.68177
625 K0.318230.000000.68177
626 E0.318230.000000.68177

General Statistics
Length: 626
Number of predicted TMHs: 1
Exp number of AAs in TMHs: 22.63977
Exp number, first 60 AAs: 0.000530000000000001
Total prob of N-in: 0.67183
inside: from residue 1 to 403
TMhelix: from residue 404 to 426
outside: from residue 427 to 626
TMHMM predicts transmembrane helices and the location of the intervening loop regions.
If the whole sequence is labeled as inside or outside, the prediction is that it contains no membrane helices. It is probably not wise to interpret it as a prediction of location. The prediction gives the most probable location and orientation of transmembrane helices in the sequence.
Plot of probabilities
The plot shows the probabilities of inside/outside/TM helix. Possible weak TM helices are sometimes not predicted, and one can get an idea of the certainty of each segment in the prediction.
At the top of the plot (between 1 and 1.2) the best prediction is shown.
The plot is obtained by calculating the total probability that a residue sits in helix, inside, or outside summed over all possible paths through the model. Sometimes it seems like the plot and the prediction are contradictory, but that is because the plot shows probabilities for each residue, whereas the prediction is the over-all most probable structure. Therefore the plot should be seen as a complementary source of information.
Remarks
  • Predicted TM segments in the n-terminal region sometimes turn out to be signal peptides.
  • One of the most common mistakes by the program is to reverse the direction of proteins with one TM segment.
  • The program does not predict whether a non-membrane protein is cytoplasmic or not.
  • This prediction has been generated using TMHMM Server v. 2.0